UNITED STATES	
SECURITIES AND EXCHANGE COMMISSION	
Washington, D.C. 20549	
 	
FORM 10-K	

x	ANNUAL REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934	
 	
For the Fiscal Year Ended December 31, 2011	
 	
OR	
o	TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934	
For the transition period from ___ to ___

Commission file number: 0-12957
 	
Enzon Pharmaceuticals, Inc.	
(Exact name of registrant as specified in its charter)	

Delaware	 	22-2372868	
(State or other jurisdiction of incorporation or organization)	 	(I.R.S. Employer Identification No.)	
 	 	 	
20 Kingsbridge Road, Piscataway, New Jersey	 	08854	
(Address of principal executive offices)	 	(Zip Code)	
Registrant’s telephone number, including area code: (732) 980-4500

          Securities registered pursuant to Section 12(b) of the Act:
 	 	 	 	 	
 	Title of Class	 	Name of Exchange on Which Registered	 	

	 	

	 	
 	 	 	 	 	
 	Common Stock, $.01 par value;
Preferred Stock Purchase Rights	 	The NASDAQ Stock Market LLC	 	
          Securities registered pursuant to Section 12(g) of the Act: None

Indicate by check mark if the registrant is a well-known seasoned issuer, as defined in Rule 405 of the Securities Act. o Yes   x No

Indicate by check mark if the registrant is not required to file reports pursuant to Section 13 or Section 15(d) of the Exchange Act. o Yes   x No

Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days.  x  Yes    o  No

1

Indicate by check mark whether the registrant has submitted electronically and posted on its corporate Web site, if any, every Interactive Data File required to be submitted and posted pursuant to Rule 405 of Regulation S-T during the preceding 12 months (or for such shorter period that the registrant was required to submit and post such files).  x  Yes    o  No

Indicate by check mark if disclosure of delinquent filers pursuant to Item 405 of Regulation S-K is not contained herein, and will not be contained, to the best of registrant’s knowledge, in definitive proxy or information statements incorporated by reference in Part III of this Form 10-K or any amendment to this Form 10-K.  o

Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer or a smaller reporting company. See the definitions of “large accelerated filer,” “accelerated filer” and “smaller reporting company” in Rule 12b-2 of the Exchange Act:

oLarge accelerated filerxAccelerated fileroNon-accelerated filero Smaller reporting company

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Act). o Yes   x No

The aggregate market value of the Common Stock, $.01 par value per share (“Common Stock”), held by non-affiliates of the registrant was approximately $505,014,000 as of June 30, 2011, based upon the closing sale price on the NASDAQ Global Market of $10.05 per share reported for such date. Shares of Common Stock held by each executive officer and director as of June 30, 2011 have been excluded in that such shares may be deemed to be owned by affiliates. This determination of affiliate status is not necessarily a conclusive determination for other purposes.

There were 48,292,702 shares of the registrant’s common stock issued and outstanding as of March 6, 2012.

DOCUMENTS INCORPORATED BY REFERENCE

Portions of the registrant’s definitive Proxy Statement for its 2012 Annual Meeting of Stockholders to be filed with the Commission not later than 120 days after the close of the registrant’s fiscal year, are incorporated by reference, in whole or in part, into Part III, Items 10, 11, 12, 13 and 14 of this Annual Report on Form 10-K.

2

ENZON PHARMACEUTICALS, INC.

2011 Annual Report on Form 10-K

Table of Contents
 	 	 	 	
 	 	 	Page	

	
PART I	
Item 1.	Business	 	5	
Item 1A.	Risk Factors	 	20	
Item 1B.	Unresolved Staff Comments	 	35	
Item 2.	Properties	 	35	
Item 3.	Legal Proceedings	 	35	
Item 4.	Mine Safety Disclosures	 	35	
 	 	 	 	
PART II	
 	 	 	 	
Item 5.	Market for Registrant’s Common Equity, Related Stockholder Matters, and Issuer Purchases of Equity Securities	 	36	
Item 6.	Selected Financial Data	 	39	
Item 7.	Management’s Discussion and Analysis of Financial Condition and Results of Operations	 	41	
Item 7A.	Quantitative and Qualitative Disclosures About Market Risk	 	56	
Item 8.	Financial Statements and Supplementary Data	 	56	
Item 9.	Changes in and Disagreements With Accountants on Accounting and Financial Disclosure	 	56	
Item 9A.	Controls and Procedures	 	56	
Item 9B.	Other Information	 	59	
 	 	 	 	
PART III	
 	 	 	 	
Item 10.	Directors, Executive Officers and Corporate Governance	 	59	
Item 11.	Executive Compensation	 	59	
Item 12.	Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters	 	59	
Item 13.	Certain Relationships and Related Transactions, and Director Independence	 	59	
Item 14.	Principal Accounting Fees and Services	 	59	
 	 	 	 	
PART IV	
 	 	 	 	
Item 15.	Exhibits and Financial Statement Schedules	 	59	
3

          Unless the context requires otherwise, references in the Annual Report on Form 10-K to “Enzon,” the “Company,” “we,” “us,” or “our” and similar terms mean Enzon Pharmaceuticals, Inc. and its subsidiaries.

          This Annual Report on Form 10-K contains forward-looking statements within the “safe harbor” provisions of the Private Securities Litigation Reform Act of 1995. All statements contained in this Annual Report on Form 10-K, other than statements that are purely historical, are forward-looking statements. Forward-looking statements can be identified by the use of forward-looking terminology such as “believes,” “expects,” “may,” “will,” “should,” “potential,” “anticipates,” “plans,” or “intends” or the negative thereof, or other variations thereof, or comparable terminology, or by discussions of strategy. Forward-looking statements are based upon management’s present expectations, objectives, anticipations, plans, hopes, beliefs, intentions or strategies regarding the future and are subject to known and unknown risks and uncertainties that could cause actual results, events or developments to be materially different from those indicated in such forward-looking statements, including the risks and uncertainties set forth in Item 1A. Risk Factors. These risks and uncertainties should be considered carefully and readers are cautioned not to place undue reliance on such forward-looking statements. As such, no assurance can be given that the future results covered by the forward-looking statements will be achieved. All information in this Annual Report on Form 10-K is as of March 12, 2012, unless otherwise indicated. The Company does not intend to update this information to reflect events after the date of this report.

          We maintain a website at www.enzon.com to provide information to the general public and our stockholders on our products, resources and services along with general information on Enzon and its management, career opportunities, financial results and press releases. Copies of this Annual Report on Form 10-K, our Quarterly Reports on Form 10-Q, our Current Reports on Form 8-K and our other reports filed with the Securities and Exchange Commission, or the SEC, can be obtained, free of charge as soon as reasonably practicable after such material is electronically filed with, or furnished to the SEC, from our Investor Relations Department by calling (732) 980-4500, through an e-mail request to investor@enzon.com, through the SEC’s website by clicking the SEC Filings link from the Investors’ Info page on our website at  www.enzon.com  or directly from the SEC’s website at  www.sec.gov . Our website and the information contained therein or connected thereto are not intended to be incorporated into this Annual Report on Form 10-K.

4

UNITED STATES SECURITIES AND EXCHANGE COMMISSION
FORM 10-K
ENZON PHARMACEUTICALS, INC.

PART I.

Item 1. Business

Our Company

          We are a biotechnology company dedicated to the research and development of innovative therapeutics for cancer patients with high unmet medical needs. Our drug development programs utilize two platforms – Customized PEGylation Linker Technology (Customized Linker Technology ® ) and third-generation messenger ribonucleic acid (mRNA) antagonists utilizing the Locked Nucleic Acid (LNA) technology. We currently have four compounds in human clinical development – a PEGylated version of the active metabolite of the cancer drug, irinotecan, PEG-SN38, and mRNA antagonists targeting Hypoxia-Inducible Factor-1α (HIF-1α), Survivin and the Androgen Receptor (AR). In addition, we have novel mRNA antagonist targets in various stages of preclinical research.

          We receive royalty revenues from licensing arrangements with other companies related to sales of products developed using our proprietary Customized Linker Technology – primarily PEGINTRON, which is marketed by Merck & Co., Inc. (Merck).

          PEGylation has successfully been used on various pharmaceutical compounds (e.g. enzymes, peptides, antibody/antibody fragments and small molecules) to improve their pharmaceutical properties. By attaching polyethylene glycol (PEG) to a pharmaceutical compound using a spectrum of stable or releasable linkers, our Customized Linker Technology has the potential to overcome pharmaceutical limitations for a broad universe of molecules and generate compounds with substantially enhanced therapeutic value over their unmodified forms. We continue to evaluate opportunities for utilizing our Customized Linker Technology platform for the development of new projects.

          We also are using LNA technology to develop mRNA antagonists against novel oncology targets. LNA technology allows the development of very selective antagonists that act through the antisense RNAase H principle. Drugs based on the antisense principle work by providing a synthetic strand of nucleic acid (in this case, a chemical analogue of RNA) that bind to the mRNA and degrade it by endogenous RNAase H. Due to the elimination of mRNA, there is no mRNA template to produce a protein. In pre-clinical studies, the LNA technology has been shown to provide mRNA antagonists with significantly enhanced binding affinity to complementary RNA sequences, high potencies, long tissue half-lives, and improved therapeutic ratios over first- and second-generation antisense drugs.

           On January 29, 2010, we consummated the sale of our specialty pharmaceutical business comprised principally of what had previously been our Products and Contract Manufacturing segments. Prior to January 29, 2010, we were a biopharmaceutical company involved in the development, manufacture and commercialization of medicines for patients with cancer and other life-threatening conditions. We operated in three business segments: Products, Royalties and Contract Manufacturing. We had a portfolio of four marketed products: Oncaspar, for the first line treatment of patients with acute lymphoblastic leukemia (ALL); DepoCyt, for the treatment of lymphomatous meningitis; Abelcet, for the treatment of invasive fungal infections; and Adagen, for the treatment of severe combined immunodeficiency disease. The contract manufacturing business involved the manufacture of products for other pharmaceutical companies. For financial reporting purposes, beginning in 2010, the operations and cash flows of the Products and Contract Manufacturing segments have been eliminated from continuing operations of the Company and have been classified as discontinued operations.

5

          Our development pipeline consists of several novel compounds:

PEG-SN38

          Through the use of our PEGylation technology, we designed PEG-SN38, a PEGylated conjugate of SN38, to offer therapeutic advantages over unmodified SN38 and existing therapies. The PEGylated version allows parenteral delivery, increased solubility, higher exposure, more profound deoxyribonucleic acid (DNA) damage, inhibition of angiogenesis, and longer apparent half-life of SN38 as compared to irinotecan. We have completed Phase I trials and are now completing two Phase II clinical trials with PEG-SN38 in patients with metastatic colorectal and breast cancer, as well as actively conducting a Phase I trial for pediatric patients with cancer. In a Phase 1 study of PEG-SN38 in children with refractory solid malignancies, the product candidate has demonstrated notable anti-tumor activity in patients with neuroblastoma. We are currently seeking a strategic partner to further develop and commercialize PEG-SN38 in the breast cancer indication as well as in other malignancies, including pediatric neuroblastoma. Absent such a partnership, we do not intend to fund further development of PEG-SN38.

mRNA Antagonists

          We have licensed several mRNA antagonists directed against novel oncology targets. Our first antagonist to enter the clinic targets the Hypoxia-Inducible Factor-1 alpha (HIF-1α). HIF-1α is over-expressed in several solid tumors. Drugs that selectively target HIF-1α have the potential to target multiple cancer processes due to their control of a large number of genes. We completed enrollment in, and are currently concluding, two Phase I studies with HIF-1α in patients with solid tumors and lymphoma to evaluate different dosing schedules. In addition, we are conducting a pilot study in collaboration with the National Cancer Institute in patients with tumors in the liver.

          Our second mRNA antagonist to enter the clinic targets Survivin. Survivin is over-expressed in many solid tumors and hematologic malignancies, but is almost absent in normal adult differentiated tissue. We completed enrollment in, and are currently concluding, a Phase I study for patients with solid tumors and lymphoma.

          In January 2011, we announced the acceptance by the U.S. Food and Drug Administration (FDA) of an Investigational New Drug (IND) for a Phase I study of a novel androgen receptor (AR) antagonist in patients with castration-resistant prostate cancer (CRPC). We are currently enrolling patients into the open-label, Phase 1a/1b, non-randomized dose-escalation study for adult patients with CRPC, who will receive the drug as a weekly, one-hour intravenous infusion. The study has two phases: Phase 1a will determine the maximum tolerated dose, after completing the Phase1a study, pharmacokinetic and pharmacodynamic studies will be conducted at one or more dose levels in Phase 1b to determine the recommended Phase 2 dose.

          We also have rights to additional mRNA targets, and we are evaluating the lead compounds we have selected for these targets based upon early preclinical studies to determine which of the compounds may warrant further investment on our part.

Our Strategy

          Our strategy is to build on the foundation that has been laid over the past few years with concentrated efforts aimed at advancing our pipeline in an as effective and expeditious manner as possible. Our energies and financial resources are focused on the promising research programs currently underway. We currently have four product candidates advancing into and through the clinic, but the cost of simultaneously studying that number of product candidates in clinical trials is substantial for a company of our size. Consequently, we are more committed than ever to making targeted and disciplined investments in areas where we believe we can make a unique contribution, achieve differentiation and have the greatest chances of success. While we have a strong balance sheet and substantial internal financial resources, we are also committed to returning to our stockholders some of the value previously created through the sale of our specialty pharmaceutical operations. On December 21, 2010, we announced that our Board of Directors had authorized a share repurchase program under which we are authorized to repurchase up to $200.0 million of our outstanding common stock. During the third quarter of 2011, we suspended this share repurchase program. Since the inception of this share repurchase program, the cumulative number of shares repurchased and retired through December 31, 2011 amounts to 11,461,449 shares at a total cost of $121.5 million, or an average cost per share of approximately $10.60.

6

          We intend to resume repurchasing shares of outstanding common stock under our $200.0 million share repurchase program. Share repurchases under this program may be made through open market or privately negotiated transactions at such times and in such amounts as we deems appropriate, based on a variety of factors such as price, corporate and regulatory requirements and overall market conditions. There can be no assurance as to the number of shares we will purchase, if any. The share repurchase program may be modified, suspended or terminated at any time without prior notice.

          In the meantime, we are actively pursuing the possibility of partnering with one or more other parties with the objective of enabling us to leverage our investment in our pipeline.

          We have invested in our infrastructure and our people. We have the know-how and the capability to take our pipeline forward. We intend to take the next steps of:

Applying our Customized Pegylation Linker and LNA technologies to further advance our development candidates, and discover and develop novel therapeutics for oncology.

          We believe our PEGylation platform has broad applicability across a variety of compounds and indications. We also believe that novel approaches to treating cancer, such as those we are pursuing with our novel mRNA antagonists, have the potential to more selectively target and eliminate cancer cells than traditional chemotherapy, particularly for recurrent advanced-stage cancers for which current treatments are inadequate.

Making targeted and disciplined investments in areas where we believe we can achieve differentiation.

          We believe our novel pipeline is differentiated and can provide multiple development opportunities. Our unique product candidates and technology platforms have a wide range of applications.

Continuing to leverage our PEGylation expertise and drug discovery and development expertise to pursue strategic partnerships and business development opportunities.

          We aim to continue seeking opportunities to apply our core PEGylation expertise, as well as our novel Customized Linker Technology, to drug candidates that may benefit from a novel delivery platform. We plan to selectively and strategically out-license our PEGylation technology and Customized Linker Technology to pharmaceutical and biotechnology companies to improve the effectiveness of their existing compounds. We offer potential partners substantial know-how in the area of PEGylation and an experienced management team with extensive experience in researching and developing pharmaceutical products.

7

RESEARCH AND DEVELOPMENT

          Our drug-development program is focused on advancing novel compounds for the treatment of cancers for which there is an unmet medical need. We are focused on building a proprietary research and development pipeline both through the application of our proprietary technologies and through entering into strategic agreements that provide access to promising product development opportunities within our therapeutic focus.

PEGYLATION TECHNOLOGY

          Since our inception in 1981, our core expertise has been in engineering improved versions of injectable therapeutics through the chemical attachment of polyethylene glycol (PEG). In some cases, PEGylation can render a compound therapeutically effective, whereas the unmodified form had only limited clinical utility. Currently, ten biologic products, seven of which are marketed, utilize our proprietary PEG platform. We continue to receive royalties for six of these products: PEGINTRON ® , Sylatron ® , Macugen ® , CIMZIA ® , Adagen ®  and Oncaspar ® . Another one of these products, Pegasys ® , also utilizes our PEG platform, but our right to receive royalties on sales of that product ended in 2009.

CUSTOMIZED LINKER TECHNOLOGY

PEG-SN38

          SN38 is the active metabolite of the cancer drug irinotecan, a chemotherapeutic drug marketed as Camptosar® (CPT-11) in the U.S. Unmodified SN38 is insoluble and can only be used to treat cancer by administering a pro-drug. A pro-drug is a compound that is converted into the active drug in the body. Only a small percentage of the pro-drug is converted into SN38 in cancer cells, and the complexity of conversion and metabolism in each patient may result in a variable efficacy and safety profile. Through the use of our PEGylation technology, we designed PEG-SN38 (EZN-2208), a PEGylated conjugate of SN38, to offer therapeutic advantages over unmodified SN38 and existing therapies. The PEGylated version allows parenteral delivery, increased solubility, higher exposure, more profound deoxyribonucleic acid (DNA) damage, inhibition of angiogenesis, and longer apparent half-life of SN38.

          Preclinical data showed that PEG-SN38 demonstrated potent in vitro cytotoxicity against several human cancer cell lines, as well as antitumor activity in several xenograft models of solid tumors and non-Hodgkins lymphoma, including those in which CPT-11 has been shown to be ineffective. Treatment with a single dose or multiple small doses of PEG-SN38 led to complete cures of animals in the breast cancer, neuroblastoma and non-Hodgkin’s lymphoma models. In colorectal and pancreatic cancer preclinical models, PEG-SN38 demonstrated significantly better therapeutic efficacy than CPT-11, at their respective maximum tolerated doses and equivalent dose levels. Importantly, treatment with PEG-SN38 resulted in tumor growth inhibition in CPT-11–resistant tumors and outperformed CPT-11 when given as second-round therapy to animals initially responding to CPT-11. These preclinical studies also showed that PEG-SN38 provided a long circulation half-life and exposure to the parent drug, SN38, in mice. Finally, PEG-SN38 also induced more profound DNA damage and inhibition of angiogenesis than CPT-11.

          In 2007, the FDA accepted our IND for the evaluation of PEG-SN38 in patients with cancer. Two Phase I studies evaluating the safety of two different dosing schedules of PEG-SN38 have been completed. Two Phase II clinical trials are currently ongoing with enrollment already completed. We are conducting a Phase I study in pediatric patients with cancer. In addition, in collaboration with the National Cancer Institute and the National Institutes of Health, we are enrolling in a Phase I study of PEG-SN38 in combination with Avastin ®  to evaluate the safety of this combination in patients with advanced cancer.

          In 2009, we opened our Phase II trial designed to evaluate patients with metastatic colorectal cancer who have failed oxaliplatin, irinotecan, and fluoropyrimidines, including patients with  K-RAS  mutated tumors and patients with  K-RAS  wild type tumors. In May 2011, we announced that, in light of evolving standards of care for the treatment of metastatic colorectal cancer (mCRC), we will discontinue our PEG-SN38 (EZN-2208) clinical program in this disease, following conclusion of its Phase II study. Data from that study were presented at ASCO GI in January 2012. Study investigators concluded the PEG-SN38 was active in combination with Erbitux® in patients with colorectal cancer.

8

          In January 2010, we started enrolling patients in a Phase II trial for patients with metastatic breast cancer. The study is designed to evaluate the efficacy of single-agent PEG-SN38 in two groups of patients who have received prior therapy regimens of either anthracycline and taxane or anthracycline, taxane, and Xeloda®. Data from that study was presented at the San Antonio Breast Cancer Symposium in San Antonio, TX in December 2011. Study investigators concluded that PEG-SN38 is active and warrants further clinical study in metastatic breast cancer. Enzon is currently seeking a strategic partner to further develop and commercialize PEG-SN38 in this indication as well as in other malignancies. These include pediatric neuroblastoma, in which the product candidate has demonstrated notable anti-tumor activity in a Phase 1 study of PEG-SN38 in children with refractory solid malignancies. Absent such a partnership, the Company does not intend to fund further development of PEG-SN38.

LOCKED NUCLEIC ACID (LNA) TECHNOLOGY-BASED PROGRAMS

          Enzon has a license and collaboration agreement with Santaris Pharma A/S for messenger ribonucleic acid (mRNA) antagonists. We hold rights worldwide, other than in Europe, to develop and commercialize mRNA antagonists based on LNA technology directed against the Hypoxia-Inducible Factor-1 alpha (HIF-1 alpha), Survivin and Androgen Receptor (AR) mRNA targets and two additional targets. LNA Technology is based on Locked Nucleic Acid, a proprietary synthetic analog of ribonucleic acid (RNA), which is fixed in the shape adopted by RNA in helical conformation. When incorporated into a short nucleic acid chain (both DNA and RNA are made up of longer chains of natural nucleic acids), the presence of LNA results in several potential therapeutic advantages. Because LNA resembles RNA but is more stable, LNA-containing drugs have both very high binding affinity for mRNA and metabolic stability. Using the antisense principle to block the function of specific mRNAs within cells and tissues, such drugs may have enhanced potency and specificity, and may provide improved efficacy at lower doses than comparable drugs based on alternative chemistry. As a result, mRNA antagonists containing LNA have been demonstrated to be significantly more potent  in vitro  and  in vivo  than conventional antisense compounds. In particular, LNA-based mRNA antagonists can be used to switch off the synthesis of proteins believed to promote cancer, thereby leading to control or shrinkage of tumors.

HIF-1 Alpha Antagonist

          The HIF-1 alpha protein is expressed in many cancer types, including common solid tumors. HIF-1 alpha is a key regulator of a large number of genes important in cancer biology, such as angiogenesis, cell proliferation, apoptosis, glucose metabolism, and cell invasion. HIF-1 alpha protein level is low in normal cells, but reaches high intracellular concentrations in a variety of cancers. The expression of HIF-1 alpha is strongly correlated with poor prognosis and resistance to therapy. Drugs targeting HIF-1 alpha thus have the potential to target multiple cancer processes.

          Preclinical study data demonstrated that in vitro, in human prostate and glioblastoma cells, the HIF-1 alpha antagonist induced a potent, selective, and durable antagonism of HIF-1 alpha expression, both under normoxic and hypoxic conditions. Down-regulation of HIF-1alpha by the HIF-1 alpha antagonist led to reduction of its transcriptional targets and significant reduction of HUVEC tube formation.  In vivo , administration of the HIF-1 alpha antagonist to normal mice led to specific, dose-dependent, and potent down-regulation of endogenous HIF-1 alpha and vascular endothelial growth factor (VEGF) in the liver. In preclinical efficacy studies, tumor reduction was found in mice implanted with DU145 cells that were transfected with the HIF-1 alpha antagonist before implantation and given systemic treatment with the HIF-1 alpha antagonist post-tumor implantation.

9

          In 2007, the FDA accepted our IND for the evaluation of the HIF-1 alpha antagonist in patients with solid tumors and lymphoma. Currently, patient enrollment is complete in two Phase I studies to evaluate the safety of the HIF-1 alpha antagonist using two different dosing schedules. In general, HIF-1 alpha antagonist therapy has been well tolerated, and many patients have received multiple cycles in both studies. We have observed stable disease in a number of patients treated with our HIF-1 alpha antagonist. Tumor shrinkage also was seen in patients with renal cell cancer, liver cancer, sarcoma, and cancer of the tonsil. In collaboration with the National Cancer Institute, we are conducting a pilot study in patients with cancer in the liver.

Survivin Antagonist

          Survivin plays a vital regulatory role in both apoptosis and cell division. Survivin is highly expressed in many cancers and in newly formed endothelial cells engaged in angiogenesis, with little expression in normal adult tissues. Resistance of cancer cells to radiotherapy and cytotoxic drugs (in particular, microtubule-interfering taxanes) is strongly correlated with expression levels of Survivin. Clinically, Survivin expression is associated with poor prognosis, increased cancer recurrence, and resistance to therapy. In January 2009, the FDA accepted our IND for the evaluation of our Survivin antagonist in patients with cancer. The same month, we opened and started enrolling patients in the Phase I study. The trial was designed to first treat patients with Survivin as a single agent; if the patient’s cancer progressed, the patient’s treatment was changed to Survivin in combination with Taxotere ® . This allowed us to gain dose and safety information both as a single agent and in combination in a single Phase I study. The study has completed enrollment and the data were presented at the AACR-NCI-EORTC international conference in November 2011.

Androgen Receptor (AR) Antagonist

          The AR is a validated target for the treatment of prostate cancer. Several approved agents prevent androgen binding to the AR or block androgen synthesis and demonstrate therapeutic benefit. Nevertheless, prostate tumors typically develop resistance to currently approved agents. It is likely that the AR still continues to promote cancer growth in such patients. Therefore, our LNA-based AR mRNA antagonist, is a novel and innovative strategy for the treatment of prostate cancer. In preclinical studies, our mRNA antagonist down-regulated the AR and inhibited the growth of prostate cancer that expressed the AR. The FDA accepted our IND for a Phase I study of AR in patients with castration-resistant prostate cancer in the fourth quarter of 2010. We are currently enrolling patients into the open-label, Phase 1a/1b, non-randomized study for adult patients with CRPC, who will receive the drug as a weekly, one-hour intravenous infusion. The study has two phases: Phase 1a will determine the maximum tolerated dose, after which pharmacokinetic and pharmacodynamic studies will be conducted at one or more dose levels in Phase 1b to determine the recommended Phase 2 dose.

Additional Gene Targets

          Enzon has rights to two additional targets. We have worldwide rights, except in Europe, to develop and commercialize the compounds. We presented preclinical data on our HER3 mRNA antagonist and our ß-catenin mRNA antagonist at the American Association for Cancer Research-National Cancer Institute-European Organization for Research and Treatment of Cancer International Conference on Molecular Targets and Cancer Therapeutics: Discovery, Biology and Clinical Applications held in November 2011. We are evaluating, based upon preclinical studies, which of these lead compounds may warrant further investment by us. Any one of these compounds could be returned to Santaris if the findings of our preclinical or clinical work do not support our continued investment.

10

ROYALTIES

          Our primary source of revenues is the royalties that we receive on sales of marketed products that utilize our proprietary technology. We receive royalties on six marketed products that utilize our proprietary PEGylation platform, namely PEGINTRON ® , Sylatron ®, Macugen ® , CIMZIA ® , Oncaspar and Adagen with PEGINTRON being the largest source of our royalty income. During 2009, our agreement to receive royalties from Pegasys for the treatment of hepatitis C expired.
 	 	 	 	 	 	 	
PRODUCT	 	INDICATION	 	COMPANY	 	EXPIRATION	

	 	

	 	

	 	

	
PEGINTRON (peginterferon alfa-2b)
Sylatron (peginterferon alfa 2b)	 	Chronic hepatitis C
Melanoma	 	Merck	 	U.S.- 2016
Europe - 2018
Japan - 2019	
Macugen (pegaptanib sodium injection)	 	Neovascular (wet) age- related macular degeneration	 	OSI Pharmaceuticals, Inc. and Pfizer Inc.	 	2014	
CIMZIA (certolizumab pegol)	 	Crohn’s disease, rheumatoid arthritis	 	UCB Pharma	 	2014	
Oncaspar (PEG-L- apsaraginase)	 	Acute lymphoblastic leukemia	 	Sigma Tau	 	2014	
Adagen (PEG-adenosine deaminase)	 	Severe combined immunedeficiency	 	Sigma Tau	 	2014	
          PEGINTRON is a PEG-enhanced version of Merck’s alpha interferon product, INTRON® A, which is used both as a monotherapy and in combination with REBETOL ®  (ribavirin) capsules for the treatment of chronic hepatitis C. Merck holds an exclusive worldwide license to PEGINTRON. We are entitled to receive royalties on Merck’s worldwide sales of PEGINTRON until certain expiration dates set forth in the license agreement which are expected to occur in 2016 in the U.S., 2018 in Europe and 2019 in Japan. Merck is responsible for all manufacturing, marketing, and development activities for PEGINTRON. We designed PEGINTRON to allow for less frequent dosing and to yield greater efficacy, as compared to INTRON A.

          Sales of PEGINTRON have been in decline since 2008. There are a number of new therapies in late stage development that could significantly erode the market for PEGylated interferon which, in combination with the generic antiviral pill, ribavirin, represents the current standard of care. The most advanced new therapies are protease inhibitors that work by blocking the action of the protease enzyme the hepatitis virus needs to replicate. The triple combination therapies (PEGylated interferon, ribavirin and protease inhibitor) that have recently been approved by the FDA are very effective in significantly reducing the hepatitis virus load, and may allow shorter course of therapy, which may be better tolerated by patients. These therapies do not exclusively require PEGINTRON, however. Since 2009, we no longer derive royalties from Pegasys, the other currently available form of PEGylated interferon manufactured by Hoffman La Roche.

          On March 29, 2011, the US Food and Drug Administration (FDA) approved peginterferon alfa-2b (Sylatron®) to treat melanoma with nodal involvement after surgical resection.

          We have out-licensed our proprietary PEGylation and single-chain antibody, or SCA, technologies on our own and through agreements with Nektar Therapeutics, Inc. (Nektar) and Micromet AG (Micromet). Under our original 2002 agreement, Nektar had the lead role in granting sublicenses for certain of our PEGylation patents and we receive royalties on sales of any approved product for which a sublicense has been granted. Effective in January 2007, Nektar’s right to grant additional sublicenses is limited to a certain class of our PEGylation patents. Existing sublicenses granted by Nektar prior to January 2007 were unaffected by this change in Nektar’s rights. Currently, we are aware of five third-party products for which Nektar has granted sublicenses to our PEGylation technology, including Astellas/Eyetech’s Macugen, UCB’s CIMZIA, Affymax and Takeda Pharmaceutical’s Hematide TM , Hoffmann-La Roche’s Pegasys and

11

an undisclosed Pfizer product. Our rights to receive royalties under our agreement with Nektar relating to CIMZIA and Macugen expire in 2014.

          CIMZIA was approved in April 2008 for the treatment of Crohn’s disease. In May 2009, CIMZIA was approved for adult patients suffering from moderate to severe rheumatoid arthritis. Macugen is being marketed by Eyetech in the U.S. and by Pfizer, on behalf of Astellas subsidiary OSI, in the rest of the world for the treatment of neovascular (wet) age-related macular degeneration, an eye disease associated with aging that destroys central vision. Hematide is a synthetic peptide-based erythropoiesis-stimulating agent being evaluated by Affymax and Takeda Pharmaceutical for the treatment of anemia in chronic kidney failure. In late June 2010, Affymax announced preliminary top-line results from the Hematide Phase 3 clinical program. Based on the results obtained, Affymax filed a New Drug Application (NDA) in late 2011. We have the right to use or grant licenses to all of our PEGylation technology for all purposes, including for our own proprietary products or those we may develop with co-commercialization partners or for those that may be developed by third parties.

          As part of the sale of the specialty pharmaceutical business, we are entitled to royalties of from 5 and 10 percent on net sales of the four marketed products (Adagen ® , Oncaspar ® , Abelcet ® , and DepoCyt ® ) above certain baseline net sales until 2014.

DEVELOPMENT AND COMMERCIALIZATION AGREEMENTS

SANTARIS PHARMA A/S LICENSE AGREEMENT

          We are party to a license agreement with Santaris pursuant to which we hold exclusive rights worldwide, other than in Europe, to develop and commercialize RNA antagonists directed against the HIF-1 alpha, Survivin and Androgen Receptor (AR) targets, as well as RNA antagonists directed against five additional gene targets selected by us. During 2006, we made payments to Santaris totaling $11 million to acquire the rights to the HIF-1 alpha, Survivin and AR antagonists and for the identification of five additional gene targets. The $11 million was reported as acquired in-process research and development. As of December 31, 2011, we have paid an additional $23 million in milestone payments to Santaris. Milestone payments are charged to research and development expense. We could be required to pay an additional $142 million in milestone payments, upon the successful completion of certain compound synthesis and selection, clinical development and regulatory milestones. Any one of the compounds we are currently studying could be returned to Santaris if the findings of our preclinical or clinical work do not support our continued investment. In fact, Enzon has returned three of the targets during 2011. Santaris also is eligible to receive single-digit percentage royalties from any future product sales of products based on the licensed antagonists. Santaris retains the full right to develop and commercialize products developed under the agreement in Europe. The agreement terminates upon the earlier of the expiration of the last royalty term for an LNA compound or material breach by either party. The royalty term expires on a country-by-country and product-by-product basis when the last valid LNA platform patent or LNA compound patent expires not to exceed 21 years with respect to any product. Santaris can terminate the agreement with respect to a specific LNA compound provided by Santaris if we do not achieve certain development milestones for that product.

MERCK AGREEMENT

          Our PEGylation technology was used to develop an improved version of Merck’s product, INTRON A. Merck is responsible for marketing and manufacturing the product, PEGINTRON, worldwide on an exclusive basis and we receive royalties on worldwide sales of PEGINTRON for all indications. Merck’s obligation to pay us royalties on sales of PEGINTRON terminates, on a country-by-country basis, upon the later of the date on which the last patent to contain a claim covering PEGINTRON expires in the country or 15 years after the first commercial sale of PEGINTRON in such country. Currently, expirations of our right to receive royalties are expected to occur in 2016 in the U.S., 2018 in Europe and 2019 in Japan. The royalty percentage to which we are entitled will be lower in any country where a PEGylated alpha-interferon product is being marketed by a third party in competition with PEGINTRON where such third party is not Hoffmann-La Roche.

12

          We do not supply Merck with PEGINTRON or any other materials and our agreement with Merck does not obligate Merck to purchase or sell specified quantities of any product. Further, we have no involvement in the selling or marketing of PEGINTRON.

          In 2007, we sold a 25-percent interest in future royalties payable to us by Merck on sales of PEGINTRON occurring after June 30, 2007 for a net purchase price of $88.7 million. The royalty sale agreement contained a provision under which we could receive an additional $15.0 million in the first quarter of 2012 if the purchaser received a certain threshold of royalties on net sales of PEGINTRON occurring from July 1, 2007 through December 31, 2011. As of December 31, 2011, this threshold was not reached and no additional payment is due from the purchaser.

          Peginterferon alfa 2b was approved for melanoma in March 2011 under the brand name Sylatron®.

NEKTAR AGREEMENT

          In January 2002, we entered into a PEGylation technology licensing agreement with Nektar under which we granted Nektar the right to grant sub-licenses for a portion of our patents related to our PEGylation technology to third-parties. Effective in January 2007, Nektar’s right to grant additional sublicenses was limited to a certain class of our PEGylation technology. Existing sub-licenses granted by Nektar prior to January 2007 were not affected. We will receive a royalty or a share of Nektar’s profits for any products that utilize our patented PEGylation technology under a license granted by Nektar. The rights to receive royalties from Nektar agreements relating to CIMZIA and Macugen expire in 2014. We have the rights to use or grant licenses to all of our PEGylation technology for all purposes, including for our own proprietary products or those we may develop with co-commercialization partners or for those that may be developed by third parties.

COMPETITION

General

          Competition in the biotechnology industry is intense and based to a significant degree on scientific and technological factors. These factors include, but are not limited to, the availability of patent and other protection of technology and products, the ability to commercialize products and technological developments, the ability to obtain governmental approval for testing, manufacturing and marketing of products, and the ability to enter into licensing and similar arrangements to facilitate the development of products and meet other business objectives. We compete with biotechnology and specialized biopharmaceutical firms and large pharmaceutical companies with respect to the partnering and licensing of research and the development of product candidates. These companies, as well as academic institutions, governmental agencies and private research organizations, also compete with us in recruiting and retaining highly qualified scientific personnel and consultants. Many of the companies we compete with are larger than we are and have substantially greater resources.

Technology

Customized PEGylation Linker Technology (Customized Linker Technology®)

          We are aware that other companies are conducting research on chemically modified therapeutic agents and that certain companies are modifying pharmaceutical products by attaching PEG. Our competitors include The Dow Chemical Company, Nektar Pharmaceuticals, Inc., SunBio Corporation, Mountain View Pharmaceuticals, Inc., Neose Technologies, Inc., NOF Corporation and Urigen Pharmaceuticals, Inc. There may be other chemical, biotechnology and pharmaceutical companies developing PEGylation linker technologies and applying such technologies to develop pharmaceutical product candidates. Some of these companies license or provide the technology to other companies, while others develop the technology for internal use. In addition, there are other delivery technologies (e.g. liposomal, nanoparticles, etc.) that may improve pharmaceutical properties of pharmaceutical compounds.

13

Third-generation mRNA-targeting agents utilizing the Locked Nucleic Acid (LNA) Technology

          We are aware that other companies are conducting research and developing products utilizing antisense technologies, siRNA/RNAi or targeting micro RNA, that compete with the LNA technology. These include Isis Pharmaceuticals, Inc. Alnylam Pharmaceuticals, Inc., Regulus Therapeutics LLC, Eli Lilly and Company and others.

Product Candidates

          HIF-1 alpha antagonist. There are a number of existing therapeutic regimens designed to treat the cancers that we may target with the HIF-1 alpha antagonist. However, we are not aware of any development of another compound that would have a mechanism similar to our HIF-1 alpha mRNA antagonist.

          Survivin antagonist. There are a number of existing therapeutic regimens designed to treat the cancers that we may target with the Survivin antagonist. We are aware of several companies, including Isis Pharmaceuticals/Eli Lilly, that are actively working on compounds targeting Survivin.

          Androgen Receptor (AR) antagonist. There are a number of existing therapeutic regimens designed to treat the cancers that we may target with the AR antagonist. However, we are not aware of the development of another compound that would have a mechanism similar to our AR mRNA antagonist. This is because our AR mRNA antagonist uniquely targets AR directly, unlike the other compounds in the market or in development that we are aware of, and may complement other antiandrogen therapies.

          PEG-SN38. There are a number of drugs in various stages of preclinical and clinical development from companies exploring cancer therapies or improved chemotherapeutic agents to potentially treat the same cancer indications that our PEG-SN38 may be developed to treat. Additionally, there are a number of drugs in development based on the active metabolite SN38. If these drugs are approved, they could compete directly with our PEG-SN38. These include products in development from Bristol-Myers Squibb Company, Pfizer Inc., GlaxoSmithKline plc, Antigenics Inc., Hoffman-La Roche Ltd., Novartis AG, Cell Therapeutics, Inc., Neopharm, Inc., Meditech Research Limited and others. Nektar Therapeutics is also developing a PEGylated form of irinotecan. Irinotecan is a pro-drug of SN38. Nektar has reported that this product candidate is currently in Phase III trials.

PEGINTRON

          PEGINTRON, marketed by Merck, competes directly with Hoffmann-La Roche’s Pegasys. Merck and Hoffmann-La Roche have been the major competitors in the global interferon alfa market since the approval of their unmodified alpha interferon products, INTRON A and ROFERON-A, respectively, and the PEGylated interferon-based combination therapy is a highly competitive market. Further, Merck has reported that the overall hepatitis C market has been contracting. Additionally, there is much research being conducted on various formulations of alpha interferon as well as many non-Interferon-based compounds being investigated for the treatment of hepatitis C. Two novel agents, protease inhibitors boceprevir (Merck) and Telaprevir (Vertex/Johnson & Johnson), were approved by the FDA in 2011. Boceprevir was studied in combination with PEGINTRON and Telaprevir was studied in combination with Pegasys. Furthermore, there are several novel agents in various stages of preclinical and clinical development for the treatment of hepatitis C which either include or eliminate combination with pegylated interferon-based therapies. It is possible that this research could lead to a competing product or ultimately to interferon-free combination therapy in the future.

14

Sylatron

          PegIntron was approved for melanoma in March 2011 under the brand name Sylatron®. Merck competes with marketed drugs sold by Bayer and by Bristol-Myers Squibb.

Macugen

          Macugen, marketed by Eyetech Inc. and Pfizer Inc., on behalf of OSI Pharmaceuticals LLC, a subsidiary of Astellas Pharma Inc., currently competes against several other therapies for the treatment of neovascular (wet) age-related macular degeneration (AMD). Additional treatments for AMD are in various stages of preclinical or clinical testing. If approved, these treatments would also compete with Macugen.

CIMZIA

          CIMZIA marketed by UCB Pharmaceuticals, Inc. currently competes against therapies for the treatment of moderate to severe rheumatoid arthritis and Crohn’s disease. CIMZIA is a biologic medicine that counteracts tumor necrosis factor (or TNF), which promotes inflammation of the joints in rheumatoid arthritis. Other TNF inhibitors approved for the treatment of rheumatoid arthritis include etanercept, infliximab, adalimumab, and golimumab. Infliximab and adalimumab are also used in the treatment of Crohn’s disease. Both diseases also have additional approved treatments that are not TNF inhibitors, as well as other treatments in various stages of preclinical or clinical testing. If approved, these treatments would also compete with CIMZIA.

PATENTS AND INTELLECTUAL PROPERTY RIGHTS

          Patents are very important to us in establishing the proprietary rights to the products we have developed or licensed. Our executive management team has reinforced our organizational commitment to intellectual property. The patent position of pharmaceutical or biotechnology companies can be uncertain and involve complex legal, scientific and factual questions. If our intellectual property positions are challenged, invalidated or circumvented, or if we fail to prevail in potential future intellectual property litigation, our business could be adversely affected. We have an extensive portfolio of issued U.S. patents and filed applications, many of which have foreign counterparts. Under various license agreements, we have received exclusive licenses to patents that relate to certain of the products we or our partners have commercialized or that we have under development. We have exclusively licensed patents from Santaris Pharma related to our LNA clinical candidates and our other LNA compounds in development. Of the patents owned or exclusively licensed by us, two relate to PEGINTRON, three relate to our HIF-1 alpha antagonist, two relate to our Survivin antagonist and one relates to our AR antagonist. Although we believe that our patents provide certain protection from competition, we cannot assure you that such patents will be of substantial protection or commercial benefit to us, will afford us adequate protection from competing products, or will not be challenged or declared invalid. In addition, we cannot assure you that additional U.S. patents or foreign patent equivalents will be issued to us.

          Patents for individual products extend for varying periods according to the date of patent filing or grant and the legal term of patents in the various countries where patent protection is obtained. The actual protection afforded by a patent, which can vary from country to country, depends upon the type of patent, the scope of its coverage and the availability of legal remedies in the country.

          The patent covering our original PEG technology, which we had licensed from Research Corporation Technologies, Inc., contained broad claims covering the attachment of PEG to polypeptides. However, this U.S. patent and its corresponding foreign patents have expired. Based upon the expiration of the Research Corporation patent, other parties may make, use, or sell products covered by the claims of the Research Corporation patent, subject to other patents, including those that we hold. We have obtained and intend to continue to pursue patents with claims covering improved methods of attaching or linking PEG to therapeutic compounds. We also have obtained patents relating to the specific composition of the PEG- modified compounds that we have identified or created. We will continue to seek such patents as we develop additional PEG-enhanced products. We cannot assure you that we will be able to prevent infringement by unauthorized third parties or that competitors will not develop competitive products outside the protection that may be afforded by our patents. We have three patents that relate to our PEG-SN38 clinical candidate.

15

          We are aware that others have filed patent applications and have been granted patents in the U.S. and other countries with respect to the application of PEG to proteins and other compounds. Owners of such patents may seek to prevent us or our collaborators from making, using or selling our products.

          In the field of SCA proteins, we have several U.S. and foreign patents and pending patent applications.

          We have obtained licenses from various parties that we deemed to be necessary or desirable for the manufacture, use, or sale of our products. These licenses generally require the payment of royalties to the licensor based on product sales. In addition, other companies have filed patent applications or have been granted patents in areas of interest to us. There can be no assurance that any licenses required under such patents will be available to us on acceptable terms.

          As part of the January 2010 sale of our specialty pharmaceutical business, we assigned to the purchaser the patents and patent applications which we owned that relate to current and new formulations of Oncaspar and Adagen and the licenses to patents that relate to Abelcet and DepoCyt. We also assigned all trademarks related to Abelcet, DepoCyt, Oncaspar and Adagen to the purchaser of our specialty pharmaceutical business.

GOVERNMENT REGULATION

          The FDA and comparable regulatory agencies in state and local jurisdictions and in foreign countries impose substantial requirements on the clinical development, manufacture, and marketing of pharmaceutical products. These agencies and other federal, state and local entities regulate research and development activities and the inspection, testing, manufacture, quality assurance, safety, effectiveness, labeling, packaging, storage, distribution, record-keeping, approval, and promotion of products. All of our products will require regulatory approval before commercialization. In particular, therapeutic products for human use are subject to rigorous preclinical and clinical testing and other requirements of the Federal Food, Drug, and Cosmetic Act and the Public Health Service Act, implemented by the FDA, as well as similar statutory and regulatory requirements of foreign countries. Obtaining these marketing approvals and subsequently complying with ongoing statutory and regulatory requirements is costly and time consuming. Any failure by us or our collaborators, licensors or licensees to obtain, or any delay in obtaining, regulatory approval or in complying with post-approval requirements, could adversely affect the marketing and sale of products that we are developing and our ability to receive product or royalty revenues.

          The steps required before a new drug or biological product may be distributed commercially in the U.S. generally include:
conducting appropriate preclinical laboratory evaluations of the product’s chemistry, formulation and stability, and animal studies to assess the potential safety and efficacy of the product,
submitting the results of these evaluations and tests to the FDA, along with manufacturing information, analytical data and clinical investigational plan, in an IND,
obtaining IND acceptance from the FDA, which may require the resolution of any safety or regulatory concerns of the FDA,
obtaining approval of Institutional Review Boards or IRBs, prior to introducing the drug or biological product into humans in clinical trials and registering clinical trials in public databases such as clinicaltrials.gov,

16

conducting adequate and well-controlled human clinical trials that establish the safety and efficacy of the drug or safety, purity and potency of the biological product candidate for the intended use, in the following three typically sequential, stages:

Phase I. The product candidate is initially introduced into healthy human subjects or patients and tested for safety, increased dose tolerance, and possibly absorption, distribution, metabolism and excretion,

Phase II. The product candidate is studied in patients with the targeted condition to gain safety experience at the proposed dosing schedules, identify possible adverse effects and safety risks to determine the optimal dosage, and to obtain initial information on effectiveness of the product candidate,

Phase III. The product candidate is studied in an expanded patient population at multiple clinical trial sites to determine primary efficacy and safety endpoints identified at the start of the clinical trial,
submitting the results of preliminary research, preclinical studies, and clinical studies as well as chemistry, manufacturing and control information on the drug or biological product to the FDA in a New Drug Application or NDA, for a drug product, or a BLA for a biological product, and
obtaining FDA approval of the NDA or BLA prior to any commercial sale or shipment of the drug or biological product.

          An NDA or BLA must contain, among other things, data derived from non-clinical laboratory studies and clinical trials which demonstrate that the product is safe and effective and for a biological product that it meets prescribed standards of safety, purity and potency, and a full description of manufacturing methods. Biological or drug products may not be marketed in the U.S. until approval by the FDA of an NDA or BLA is received.

          The approval process can take a number of years, if approval is obtained at all, and often requires substantial financial resources, including license application fees. The results of preclinical studies and initial clinical trials are not necessarily predictive of the results from large-scale clinical trials, and clinical trials may be subject to additional costs, delays or modifications due to a number of factors, including the difficulty in obtaining enough patients, clinical investigators, drug supply, or financial support. Certain clinical trials performed under an IND must be registered in the official clinical trial website, and non-compliance can result in significant fines. The FDA has the power to impose changes relating to safety and efficacy of approved products. The FDA can impose substantial fines if these requirements are not carried out to the agency’s full satisfaction. Upon approval, a drug product or biological product may be marketed only in those dosage forms and for those indications approved in the NDA or BLA.

          In addition to obtaining FDA approval for each indication for which the manufacturer may market the drug, each domestic drug product manufacturing establishment must register with the FDA, list its drug products with the FDA, comply with and maintain current Good Manufacturing Practices (cGMP) and permit and pass inspections by the FDA and other regulatory authorities. Moreover, the submission of applications for approval may require the preparation of large-scale production batches that cannot be used commercially and additional time to complete manufacturing stability studies.

          Any products manufactured or distributed by us pursuant to FDA approvals are subject to extensive continuing regulation by the FDA, including record-keeping requirements and a requirement to report adverse experiences with the product. In addition to continued compliance with standard regulatory requirements, the FDA also may require post-marketing testing and surveillance to monitor the safety and efficacy of the marketed product. Product approvals may be withdrawn if compliance with regulatory requirements is not maintained or if problems concerning safety or efficacy of the product are discovered following approval.

17

          The Federal Food, Drug, and Cosmetic Act mandates that drug products be manufactured consistent with cGMP. In complying with the FDA’s regulations on cGMP, manufacturers must continue to spend time, money and effort in production, record-keeping, quality control, quality assurance, and auditing to ensure that the marketed product meets applicable specifications and other requirements. The FDA periodically inspects drug product manufacturing facilities to ensure compliance with cGMP. Failure to comply with cGMP or other FDA requirements subjects the manufacturer to possible FDA action, such as:
untitled and warning letters,
suspension of manufacturing,
seizure of a product,
voluntary recall of a product,
injunctive actions and
civil or criminal penalties.

          To the extent we rely on third parties to manufacture our compounds and products, those third parties will be required to comply with cGMP as required by regulations.

          Even after FDA approval has been obtained, and often as a condition to expedited approval, further studies, including post-marketing studies, are typically required by the FDA. Results of post-marketing studies may limit or expand the further marketing of the products. If we propose any modifications to the product, including changes in indication, manufacturing or testing processes, manufacturing facility or labeling, an NDA or BLA supplement may be required to be submitted to and approved by the FDA.

          Products manufactured in the U.S. for distribution abroad will be subject to FDA regulations regarding export, as well as to the requirements of the country to which they are shipped. These latter requirements apply to products studied in clinical trials, the submission of marketing applications, and all aspects of product manufacture and marketing. Such requirements vary significantly from country to country. As part of our strategic relationships, our collaborators may be responsible for the foreign regulatory approval process of our products, although we may be legally liable for noncompliance.

          We cannot predict the extent of government regulation that might result from current or future legislation or administrative action. Moreover, we anticipate that the presidential administration, Congress, state legislatures and the private sector will continue to review and assess controls on health care spending. Any such proposed or actual changes could cause us or our collaborators to limit or eliminate spending on development projects and may otherwise impact us. We cannot predict the likelihood, nature or extent of adverse governmental regulation that might result from current or future legislative or administrative action, either in the U.S. or abroad. Additionally, in both domestic and foreign markets, sales of our proposed products will depend, in part, upon the availability of reimbursement from third-party payors, such as government health administration authorities, managed care providers, private health insurers and other organizations. Significant uncertainty often exists as to the reimbursement status of newly approved health care products. In addition, third-party payors are increasingly challenging the price and cost-effectiveness of medical products and services. There can be no assurance that our product candidates will be considered cost-effective or that adequate third-party reimbursement will be available to enable us to maintain price levels sufficient to realize an appropriate return on our investment in product research and development.

          PEGINTRON has been approved for treatment of hepatitis C in the European Union, the U.S., Japan and China, and for the treatment of hepatitis B in China. None of the product candidates we are developing has been approved for marketing in the U.S. or elsewhere.

          With respect to patented products, delays imposed by the government approval process may materially reduce the period during which we will have the exclusive right to exploit them.

18

          Our operations are also subject to federal, state and local environmental laws and regulations concerning, among other things, the generation, handling, storage, transportation, treatment and disposal of hazardous, toxic and radioactive substances and the discharge of pollutants into the air and water. Environmental permits and controls are required for some of our operations and these permits are subject to modification, renewal and revocation by the issuing authorities. We believe that our facilities are in compliance with our permits and environmental laws and regulations and do not believe that future compliance with current environmental laws will have a material adverse effect on our business, financial condition or results of operations. If, however, we were to become liable for an accident, or if we were to suffer an extended facility shutdown as a result of such contamination, we could incur significant costs, damages and penalties that could harm our business.

EMPLOYEES

          As of December 31, 2011, we employed 72 persons, including 21 persons with Ph.D. and/or M.D. degrees. None of our employees is covered by a collective bargaining agreement. All of our employees are covered by confidentiality agreements. We consider our relations with our employees to be good.

          In September 2011, we announced a reduction in force that will reduce the number of employees by June 2012. Once this reduction in force is fully implemented, we expect to have fewer than 50 employees. The majority of the reductions in force occurred by January 2012.

     Management Update

          Effective October 17, 2011, Ralph del Campo’s employment as our Chief Operating Officer and Principal Executive Officer concluded, and Ana I. Stancic was promoted to Executive Vice President, Chief Operating Officer and Principal Executive Officer. Ms. Stancic also continues to serve as our Chief Financial Officer.

          Effective December 19, 2011, Timothy G. Daly was appointed our Vice President, Controller and Chief Accounting Officer.

19

Item 1A. Risk Factors

          Throughout this Annual Report on Form 10-K, we have made forward-looking statements in an attempt to better enable the reader to understand our future prospects and make informed judgments. By their nature, forward-looking statements are subject to numerous factors that may influence outcomes or even prevent their eventual realization. Such factors may be external to Enzon and entirely outside our control.

          We cannot guarantee that our assumptions and expectations will be correct. Failure of events to be achieved or of certain underlying assumptions to prove accurate could cause actual results to vary materially from past results and those anticipated or projected. We do not intend to update forward-looking statements.

          Certain risks and uncertainties are discussed below. However, it is not possible to predict or identify all such factors. Accordingly, you should not consider this recitation to be complete.

Risks Relating to Our Business

We may incur losses over the next several years and may never achieve or sustain profitability.

          We have limited sources of revenues and we may incur losses over the next several years, including for the year ending December 31, 2012. We also expect to spend significant amounts to continue researching and developing our product candidates and technologies.

          None of our product candidates has been approved by the FDA, and none of them has been commercialized. We do not know when we will have products approved by the FDA or commercialized, if ever. In the absence of revenue from the sale of products or other new sources, our losses will continue as we conduct our research and development activities.

Development of any successful product candidates is highly uncertain due to the extended testing and regulatory review process required before marketing clearance can be obtained and failure to develop, obtain regulatory approval and commercialize our product candidates could materially harm our business.

          There is a high risk of failure for pharmaceutical product candidates. Only a small minority of all research and development programs ultimately result in commercially successful drugs. We may never succeed in developing an approved drug. Further, due to the extended testing and regulatory review process required before marketing clearance can be obtained, the time periods before commercialization of any of these products are long and uncertain. Risks during development and commercialization include the possibility that: (i) any or all of our product candidates will be found to be ineffective; (ii) our product candidates will have adverse side effects or will otherwise fail to receive the necessary regulatory approvals; (iii) our product candidates may be effective but uneconomical to manufacture or market; or (iv) our competitors may market equivalent or superior products. For example, in May 2011, we announced that, in light of evolving standards of care for the treatment of metastatic colorectal cancer (mCRC), we will discontinue our PEG-SN38 (EZN-2208) clinical program in this disease, following conclusion of the Phase II study.

          The risk of failure is increased for our product candidates that are based on new technologies or approaches to the development of therapeutics. For example, the LNA technology is a novel technology and there are currently no approved drugs, or even late-stage drug candidates, employing this technology. Product candidates employing these technologies may not advance to pivotal stages of product development or demonstrate clinical safety or efficacy. If we do not succeed in the development of these product candidates, or if our technologies fail to generate products, our business could be materially harmed.

20

          From time to time, we may establish and announce certain development goals for our product candidates and programs. However, given the complex nature of the drug discovery and development process, it is difficult to predict accurately if and when we will achieve these goals. If we are unsuccessful in advancing our preclinical programs into clinical testing, advancing our clinical programs into later clinical phases, or in obtaining regulatory approval, our business prospects may be harmed.

          We do not expect any of the drugs resulting from our current research and development efforts to be commercially available for several years, if at all. In order to fill our pipeline of product candidates under development, we may attempt to acquire rights to products under development by other companies. The competition for the acquisition of rights to products that are viewed as viable candidates for successful development and commercialization is intense, and we will be competing for such opportunities with many companies with resources that are substantially greater than ours.

Our financial results are heavily dependent on the continued sales of PEGINTRON on which we receive royalties, and if revenues from these royalties or royalties from the sales other products materially decline, our results of operations and financial position could be materially harmed.

          Our results of operations are heavily dependent on the royalty revenues we receive from the sale of PEGINTRON, which is marketed by Merck and sales of which have been in decline since 2008. As a consequence, a continued decline in the sales of PEGINTRON could adversely affect our operating results and financial position. We cannot assure you that Merck will continue to generate sales of PEGINTRON at levels that would enable us to receive royalties in amounts that are comparable with the amounts of royalties that we have received in recent years. The amount and timing of resources dedicated by Merck to the marketing of PEGINTRON is not within our control. Our royalty revenues will be negatively affected if sales of PEGINTRON are limited for any reason, including if Merck cannot market PEGINTRON effectively as a result of competitive, manufacturing, regulatory or other issues.

          Products that compete with PEGINTRON have been and potentially will be introduced by other drug manufacturers. Hoffmann-La Roche’s Pegasys, a competing PEGylated interferon alfa, has resulted in significant competitive pressure on PEGINTRON sales in the U.S. and all international markets. Pegasys has taken market share away from PEGINTRON and the overall market for PEGylated alpha-interferon for the treatment of hepatitis C has been contracting. As a result, sales of PEGINTRON in certain markets where it competes with Pegasys and the royalties we receive on those sales have declined. We cannot assure you that Pegasys will not continue to gain market share at the expense of PEGINTRON which could result in lower PEGINTRON sales and lower royalties to us. There are several novel agents in various stages of preclinical and clinical development for the treatment of hepatitis C which either include or eliminate combination with pegylated interferon-based therapies. It is possible that this research could lead to a competing product or ultimately to interferon-free combination therapy in the future.

We may require additional financing to meet our future capital needs and failure to obtain such funding could have a material and adverse effect on our business, financial condition and operations.

          Our research and development projects require substantial capital. We will continue to expend substantial resources for research and development, including costs associated with developing our product candidates and conducting clinical trials. We believe that our current cash and investments will be adequate to satisfy our capital needs for the near future, but we have limited sources of revenue and we may require additional financing to meet our future capital needs.

21

          We may require substantial additional capital to:
fund research and development activities;
conduct pre-clinical studies and clinical trials; and
undertake other activities relating to the development of product candidates.

          Our future capital needs depend on many factors, including:
the scope, duration and expenditures associated with our research and development programs;
continued scientific progress in these programs;
the outcome of potential licensing transactions, if any;
competing technological developments;
our proprietary patent position in our products; and
the regulatory approval process for our product candidates.

          We may seek to raise necessary funds through public or private equity offerings, debt financings or additional strategic alliances and licensing arrangements. Any additional equity financings may be on terms that are dilutive or potentially dilutive to our stockholders. Any debt financing we enter into may involve incurring significant interest expense and include covenants that restrict our operations. We may not be able to obtain additional financing on terms favorable to us, if at all. General market conditions may make it difficult for us to seek financing from the capital markets. We may be required to relinquish rights to our technologies or drug candidates, or grant licenses on terms that are not favorable to us, to raise additional funds through alliance, joint venture or licensing arrangements. If adequate funds are not available, we may have to delay, reduce or eliminate one or more of our research or development programs and reduce overall overhead expenses. These actions could have a material adverse effect on our business, financial condition and operations.

We depend on our collaborative partners, and if we lose our collaborative partners or they do not apply adequate resources to our collaborations, our product development and financial performance may suffer.

          We rely and will depend heavily in the future on collaborations with partners, primarily pharmaceutical and biotechnology companies, for one or more of the research, development, manufacturing, marketing and other commercialization activities relating to most of our product candidates. If we lose our collaborative partners, or if they do not apply adequate resources to our collaborations, our product development and financial performance may suffer.

          The amount and timing of resources dedicated by our collaborators to their collaborations with us are not within our control. If any collaborator breaches or terminates its agreements with us or fails to conduct its collaborative activities in a timely manner, the commercialization of our product candidates could be slowed or blocked completely. For example, Santaris can terminate its agreement with respect to a specific LNA compound provided by them if we do not achieve certain development milestones for that compound or if we do not make certain milestone payments. In addition, our collaborative partners may change their strategic focus, pursue alternative technologies or develop alternative products as a means of developing treatments for the diseases targeted by these collaborative programs and these could compete with products we are developing.

          Further, our collaborations may not be successful. Disputes may arise between us and our collaborators as to a variety of matters, including financing obligations under our agreements and ownership of intellectual property rights. These disputes may be both expensive and time-consuming and may result in delays in the development and commercialization of products. If any of the product candidates that we are commercializing with collaborators are delayed or blocked from entering the market or we experience increased costs as a result of our relationship with our collaborators, our financial performance could be adversely affected.

22

We purchase some of the compounds utilized in our product candidates from a single source or a limited group of suppliers, and the partial or complete loss of any one of these suppliers could cause production delays and a substantial loss of revenues.

          We purchase the unmodified pharmaceutical compounds, bulk PEGs and other compounds used to manufacture our product candidates from outside suppliers. In some cases, we have a limited number of suppliers.

          Our reliance on our suppliers exposes us to significant risks. These suppliers might:
be unable or unwilling to provide us with sufficient materials to meet our demands;
fail to meet our standards of quality or other specifications;
increase significantly the prices they charge us for materials; or
not carry out their contractual duties or meet anticipated deadlines, which could result in delays in obtaining or maintaining regulatory approvals.

          If our suppliers are unwilling or unable to timely supply us with materials meeting our specifications, we may not be able to locate any alternative suppliers or enter into commercially reasonable agreements with suppliers in a timely manner or at all. In addition, we may be unable to find alternative suppliers with appropriate regulatory authorizations. If we experience a delay in obtaining or are unable to obtain any compound for the manufacture of our product candidates on reasonable terms, or at all, it could have a material adverse effect on our business, financial condition and results of operations.

Our product candidates must undergo extensive clinical testing, the results of which are highly uncertain and could substantially delay or prevent us from obtaining regulatory approval.

          Before we can market a product, we must obtain regulatory approval for a product candidate. To obtain regulatory approval, we must undertake extensive clinical testing in humans to demonstrate safety and efficacy to the satisfaction of the FDA and similar foreign regulatory authorities for each indication. The pre-clinical testing and clinical trials for any product candidates that we develop must comply with the regulations of numerous federal, state and local government authorities in the U.S., principally the FDA, and those of similar agencies in other countries. Clinical trials of new product candidates sufficient to obtain regulatory marketing approval are expensive and take years to complete.

          Even though they consume substantial resources, the outcome of these trials is highly uncertain. Safety and efficacy results from pre-clinical studies involving animals and other models and from early clinical trials are often not accurate indicators of results of later-stage clinical trials that involve larger human populations, and, moreover, may not always be representative of results obtained while marketing an approved drug, particularly with regard to safety. In addition, we may suffer significant setbacks in clinical trials, even after achieving promising results in earlier trials. For example, Phase II data may not replicate Phase I results or Phase III efficacy data may not replicate Phase II data. Any adverse results from studies, including clinical trials, could have a negative effect on our ability to obtain the approval of the FDA or other regulatory agencies. Unfavorable results of clinical trials conducted by our competitors or other biotechnology companies could also adversely affect our ability to gain regulatory approval of our product candidates by increasing government examination and complexity of clinical trials. Government and public concerns over safety issues associated with pharmaceutical and biological products could potentially result in termination of clinical trials on entire classes of drug candidates, lengthen the trial process for product categories, increase legal and production costs relating to certain drug categories, and/or expand the safety labeling for approved products.

23

          Clinical development of any product candidate that we decide to take into clinical trials may be delayed or prevented at any time for some or all of the following reasons:
negative or ambiguous results regarding the efficacy of the product candidate;
undesirable side effects that delay or extend the trials or make the product candidate not medically or commercially viable;
inability to recruit and qualify a sufficient number of patients for our trials;
regulatory delays or other regulatory actions, including changes in regulatory requirements;
difficulties in obtaining sufficient quantities of the product candidate manufactured under current good manufacturing practices;
delays, suspension or termination of the trials imposed by us, an independent institutional review board for a clinical trial site, or clinical holds placed upon the trials by the FDA; and
our failure to obtain adequate financial resources to fund these trials.

We depend on third parties to conduct the clinical trials for our product candidates, and any failure of those parties to fulfill their obligations could harm our development and commercialization plans.

          We depend on independent clinical investigators, contract research organizations, academic institutions and other third-party service providers to conduct clinical trials for our product candidates. Although we rely heavily on these parties for successful execution of our clinical trials, we are ultimately responsible for the results of their activities and many aspects of their activities are beyond our control. For example, we are responsible for ensuring that each of our clinical trials is conducted in accordance with the general investigational plan and protocols for the trial, but the independent clinical investigators may prioritize other projects over ours or may fail to timely communicate issues regarding our products to us. Third parties may not complete activities on schedule or may not conduct our clinical trials in accordance with regulatory requirements or our stated protocols. The early termination of any of our clinical trial arrangements, the failure of third parties to comply with the regulations and requirements governing clinical trials or our reliance on results of trials that we have not directly conducted or monitored could hinder or delay the development, approval and commercialization of our product candidates and would adversely affect our business, results of operations and financial condition.

          If our clinical trials are not successful, if we experience significant delays in these trials, or if we do not complete our clinical trials, we may not be able to commercialize our product candidates, which would materially harm our business.

We depend on patents and proprietary rights, which may offer only limited protection against potential infringement and the development of competing products.

          The pharmaceutical industry places considerable importance on obtaining patent and trade secret protection for new technologies, products and processes. Our success depends, in part, on our ability to develop and maintain a strong patent position for our product candidates and technologies both in the U.S. and in other countries and to protect our proprietary rights. If we are unable to obtain and enforce patent protection for our product candidates or to maintain the confidentiality of our trade secrets, our business could be materially harmed. We have an extensive portfolio of issued U.S. patents and filed applications, many of which have foreign counterparts. In addition, under our license agreements, we have exclusively licensed patents related to our HIF-1 alpha, Survivin and AR antagonists and our other LNA compounds in development. Although we believe that our patents provide certain protection from competition, such patents may not provide substantial protection or commercial benefit to us, or afford us adequate protection from competing products, and may be challenged or declared invalid. In addition, U.S. patents or foreign patent equivalents may not be issued to us in the future.

24

          Issued patents may be challenged, invalidated or circumvented. In addition, court decisions may introduce uncertainty as to the enforceability or scope of patents owned by biotechnology and pharmaceutical companies, including us. The legal systems of certain countries do not favor the aggressive enforcement of patents, and the laws of foreign countries may not protect our rights to the same extent as the laws of the U.S. Therefore, enforceability or scope of our patents in the U.S. or in foreign countries cannot be predicted with certainty, and, as a result, any patents that we own or license may not provide sufficient protection against competitors. In addition, we may not be able to obtain or maintain a patent from our pending patent applications, those we may file in the future, or those we may license from third parties.

          We believe that our patent rights are enforceable. However, those rights may prove unenforceable or invalid, or may expire prior to the commercialization of our product candidates, thus allowing others to more effectively compete with us. Therefore, any patents that we own or license may not adequately protect our product candidates or our future products. If we are not able to protect our patent positions, our business and financial condition could be materially harmed. We may become aware that certain organizations are engaging in activities that infringe certain of our patents, including our PEGylation technology patents. We may be unable to enforce our patents and other rights against such organizations.

          Legal or administrative proceedings may be necessary to enforce our intellectual property rights or to defend against claims of infringement. We have in the past been involved in patent litigation and other proceedings and we may likely become involved in additional patent litigation or proceedings in the future. If we become involved in any such litigation or proceeding, irrespective of the outcome, we may incur substantial costs, the efforts of our technical and management personnel may be diverted, and such disputes could substantially delay or prevent our product development or commercialization activities, which could materially harm our business, financial condition and results of operations.

Blocking patents or claims of infringement may stop or delay the development of our product candidates.

          Other entities may have or obtain proprietary rights that could impair our competitive position. Our commercial success depends in part on avoiding claims of infringement of the patents or proprietary rights of such third parties. Although we investigate the patent protection surrounding our technology and product candidates, there are numerous patents, each with multiple claims, which makes it difficult to uncover and interpret the extent of patent protection which can lead to uncertainty about our freedom to operate. It is possible that we will not be aware of issued patents or pending patent applications that are relevant to our product candidates because our searches do not find them or because they are not yet publicly available. Our interpretation of patents could be challenged, leading to litigation, and we could face claims of infringement of rights of which we are unaware.

          There have been significant litigation and interference proceedings regarding patent rights, and the patent situation regarding particular products is often complex and uncertain. As we proceed with the development of our product candidates, we may face uncertainty and litigation could result, which could lead to liability for damages, prevent our development and commercialization efforts and divert resources from our business strategy.

          Third parties from time to time may assert that we are infringing their patents, trade secrets or know-how. In addition, our technology may infringe patents that may be issued in the future to third parties. We could incur substantial costs in defending ourselves and our partners against any such claims. Furthermore, parties making such claims may be able to obtain injunctive or other equitable relief, which could effectively block our ability or our partners’ ability to further develop or commercialize some or all of our products or technology in the U.S. and abroad, and could result in the award of substantial damages. If we are found to infringe other parties’ patents, trade secrets or know-how, we may be required to obtain one or more licenses from third parties or be unable to proceed with development or commercialization of our product candidates. We may not be able to obtain such licenses at a reasonable cost, if at all. Defense of any lawsuit or failure to obtain any such required license could have a material adverse effect on us.

25

We may have to develop or license alternative technologies if we are unable to obtain key technology from third parties or maintain our rights to technology we license from third parties.

          We have licensed patents and patent applications from Santaris under a collaboration and license agreement. Some of our proprietary rights have been licensed to us under agreements that have performance requirements or other contingencies. The failure to comply with these provisions could lead to termination or modifications of our rights to these licenses. Additionally, we may need to obtain additional licenses to patents or other proprietary rights from other parties to facilitate development of our proprietary technology base. The ownership of patents exclusively licensed to us may be subject to challenge if inventorship was not adequately investigated and represented. If our existing licenses are terminated or if we are unable to obtain such additional licenses on acceptable terms, our ability to perform our own research and development and to comply with our obligations under our collaborative agreements may be delayed while we seek to develop or license alternative technologies.

The patents upon which our original PEGylation technology was based have expired and, as a result, the scope of our patent protection is narrower.

          The U.S and corresponding foreign patents upon which our original PEGylation technology was based expired in 1996. Without that patent protection, other parties are permitted to make, use or sell products covered by the claims of those patents, subject to other patents, including those which we hold. We have obtained numerous patents with claims covering improved methods of attaching or linking PEG to therapeutic compounds. However, these patents may not enable us to prevent competition or competitors may develop alternative methods of attaching PEG to compounds potentially resulting in competitive products outside the protection that may be afforded by our patents. We are aware that others have also filed patent applications and have been granted patents in the U.S. and other countries with respect to the application of PEG to proteins and other compounds.

The manufacture of our product candidates is a complex and highly-regulated process and we rely on third-party manufacturers to manufacture materials for us. If any of them fails to meet regulatory requirements, our business could suffer.

          The FDA and foreign and state regulators require manufacturers to register manufacturing facilities. The FDA and these regulators also inspect these facilities to confirm compliance with current good manufacturing practices or similar requirements that the FDA and these regulators establish. The manufacture of product candidates and key reagents at any facility is subject to strict quality control, testing, and record keeping requirements, and continuing obligations regarding the submission of safety reports and other post-market information. Ultimately, we, our third-party manufacturers, our licensees or other suppliers may not meet these requirements. Our third-party manufacturers may face manufacturing or quality control problems causing product production and shipment delays or a situation where we or they may not be able to maintain compliance with the FDA’s current good manufacturing practices requirements or those of foreign or state regulators, necessary to continue manufacturing our product candidates and materials. Any failure to comply with current good manufacturing practices requirements or other FDA and foreign or state regulatory requirements could adversely affect our clinical research activities and our ability to market and develop our products candidates.

We may be subject to a variety of types of product liability or other claims based on allegations that the use of our product candidates by participants in our clinical trials has resulted in adverse effects, and our insurance may not cover all product liability or other claims.

          We may face liability claims related to the use or misuse of our product candidates in clinical trials. These claims may be expensive to defend and may result in large judgments against us. Generally, our clinical trials are conducted in patients with serious life-threatening diseases for whom conventional treatments have been unsuccessful and during the course of treatment these patients could suffer adverse medical effects or die for reasons that may or may not be related to our product candidates. Any of these events could result in a claim of liability. Any such claims against us, regardless of their merit, could result

26

in significant costs to defend or awards against us that could materially harm our business, financial condition or results of operations.

          Although we maintain product liability insurance for claims arising from the use of our product candidates in clinical trials prior to FDA approval and for claims arising from the use of our products after FDA approval at levels that we believe are appropriate, we may not be able to maintain our existing insurance coverage or obtain additional coverage on commercially reasonable terms for the use of our other product candidates and products in the future. Also, our insurance coverage and resources may not be sufficient to satisfy any liability resulting from product liability claims, which could materially harm our business, financial condition or results of operations.

We depend on key personnel, some of whom we have lost from time to time, and may not be able to retain existing key personnel or recruit additional qualified personnel, which would harm our business.

          Because of the specialized scientific nature of our business, we are highly dependent upon qualified research and development scientists, technical and managerial personnel. There is intense competition for qualified personnel in the pharmaceutical field. Therefore, we may not be able to attract and retain the qualified personnel necessary for the development of our business. Our ability to continue to retain our research and development scientists, technical and managerial personnel is not assured.

          During 2011, we lost some key personnel. Effective April 4, 2011, Ivan D. Horak, M.D. resigned as our President of Research and Development and Chief Scientific Officer. Effective July 1, 2011, Paul Davit’s employment as our Executive Vice President, Human Resources & Administration concluded. Effective October 17, 2011, Ralph del Campo’s employment as our Chief Operating Officer and Principal Executive Officer concluded. Ana I. Stancic is currently serving as our Chief Operating Officer, Principal Executive Officer, Executive Vice President and Chief Financial Officer.

          The loss of the services of one or a combination of our senior executives, as well as the failure to retain existing, or recruit additional, key research and development scientists, technical and managerial personnel in a timely manner, could have an adverse effect on our business.

As a result of our restructuring initiatives and the related reductions in our workforce, we are in the process of reallocating certain employment responsibilities and may outsource certain corporate functions which could have the potential to affect our internal control over financial reporting and make us more dependent on third-parties to perform these corporate functions.

          In September 2011, we announced a reduction in force that will reduce the number of employees by approximately 48 percent by June 2012. Once this reduction in force is fully implemented, we expect to have fewer than 50 employees. In addition, in both the first and fourth quarters of 2010, we initiated restructurings which together resulted in the elimination of 97 employee positions. The reductions resulted, or will result, in the reallocation of certain responsibilities, which could adversely impact operational efficiencies, employee performance, employee retention or internal controls. Also, as a result of these reductions, we may be required to outsource certain corporate functions, which will make us more dependent on third-parties for the performance of these functions in connection with our business and product candidates. To the extent that we are unable to effectively reallocate employee responsibilities, retain key employees, effectively design adequate internal and compensating controls, establish and maintain agreements with competent third-party contractors on terms that are acceptable to us, or effectively manage the work performed by any retained third-party contractors, our ability to advance our business or product candidates may be significantly impaired and our stock price may be adversely affected.

27

Risks Relating to Our Industry

Significant competition for our technology platforms and product candidates could make our technologies or product candidates obsolete or uncompetitive, which would negatively impact our business, results of operations and financial condition.

          The biopharmaceutical industry is characterized by extensive research and development effort, and rapid technological change. Our future success will depend on our ability to maintain a competitive position with respect to technological advances. Rapid technological development by others may result in our product candidates and technologies becoming obsolete. We face intense competition from established biotechnology and pharmaceutical companies, as well as academic and research institutions that are pursuing competing technologies and products. We know that competitors are developing or manufacturing various platform technologies and products that are used for the prevention, diagnosis or treatment of diseases that we have targeted for product development. Current and prospective competing products may provide greater therapeutic benefits for a specific problem or may offer comparable performance at a lower cost when compared to our product candidates. In addition, any product candidate that we develop and that obtains regulatory approval must then compete for market acceptance and market share.

          Our competitors in the PEGylation technology field include The Dow Chemical Company, Nektar Pharmaceuticals, Inc., SunBio Corporation, Mountain View Pharmaceuticals, Inc., Neose Technologies, Inc., NOF Corporation and Urigen Pharmaceuticals, Inc. Several other chemical, biotechnology and pharmaceutical companies may also be developing PEGylation technologies. Some of these companies license or provide the technology to other companies, while others develop the technology for internal use.

          Other companies are conducting research and developing products utilizing technologies targeting RNA (e.g. antisense, siRNA/RNAi or micro RNA) that compete with the LNA technology. These include Isis Pharmaceuticals Inc., Alnylam Pharmaceuticals, Inc., Regulus Therapeutics LLC, Eli Lilly and Company and others. There are a number of existing therapeutic regimens designed to treat the cancers that we may target with the HIF-1 alpha antagonist. However, we are not of aware of the development of another compound that would have a mechanism similar to our HIF-1 alpha antagonist. There are a number of existing therapeutic regimens designed to treat the cancers that we may target with the Survivin antagonist and we are aware of several companies that are actively working on compounds targeting Survivin. There are a number of existing therapeutic regimens designed to treat the cancers that we may target with the AR antagonist. However, we are not aware of another compound that would have a mechanism similar to our AR antagonist.

          There are a number of drugs in various stages of preclinical and clinical development from companies exploring cancer therapies or improved chemotherapeutic agents to potentially treat the same cancer indications that our PEG-SN38 may be developed to treat. Additionally, there are a number of drugs in development based on the active metabolite SN38. If these drugs are approved, they could compete directly with our PEG-SN38. These include products in development from Bristol-Myers Squibb Company, Pfizer Inc., GlaxoSmithKline p/c, Antigenics Inc., Hoffman–La Roche Ltd., Novartis AG, Cell Therapeutics, Inc., Neopharm, Inc., Meditech Research Limited and others. Nektar Therapeutics is also developing a PEGylated form of irinotecan. Irinotecan is a prodrug of SN38.

          Many of our competitors have substantially greater research and development capabilities and experience and greater manufacturing, marketing and financial resources than we do. In addition, many of our competitors have much more experience than we do in pre-clinical testing and human clinical trials of new drugs, as well as in obtaining FDA and other regulatory approval. We face competition from these companies not just in product development but also in areas such as recruiting employees, acquiring technologies that might enhance our ability to commercialize products, establishing relationships with certain research and academic institutions, enrolling patients in clinical trials and seeking program partnerships and collaborations with larger pharmaceutical companies. Accordingly, our competitors may develop technologies and products that are superior to those we or our collaborators are developing and

28

render our technologies and products or those of our collaborators obsolete and noncompetitive. If we cannot compete effectively, our business and financial performance would suffer.

The regulatory approval process is highly uncertain and we will not be allowed to market products if regulatory approval has not been obtained.

          The marketing of pharmaceutical products in the U.S. and abroad is subject to stringent governmental regulation. The sale of any new products for use in humans in the U.S. requires the prior approval of the FDA. If our products are marketed abroad, they will also be subject to extensive regulation by foreign governments, whether or not we have obtained FDA approval for a given product and its indications. The FDA has established mandatory procedures and safety standards that apply to the clinical testing and marketing of pharmaceutical products. The FDA regulates the research, development, pre-clinical and clinical testing, manufacture, safety, effectiveness, record-keeping, reporting, labeling, storage, approval, advertising, promotion, sale, distribution, import and export of pharmaceutical and biological products. Obtaining FDA approval for a new therapeutic product may take many years and involve substantial expenditures. Compliance with these regulations can be costly, time-consuming and subject us to unanticipated delays in developing our products. Neither we nor our licensees may be able to obtain or maintain FDA or other relevant marketing approval for any of our products.

          There may be limitations placed on our ability to successfully market our products by the FDA or foreign regulators.

          Regulatory approval may:
limit the indicated uses for a product;
otherwise limit our ability to promote, sell and distribute the product;
require that we conduct costly post-marketing surveillance; and
require that we conduct ongoing post-marketing studies. Material changes to an approved product, such as manufacturing changes or revised labeling, may require further regulatory review and approval. Once obtained, any approvals may be withdrawn for a number of reasons, including the later discovery of previously unknown problems with the product, such as a safety issue. If we or our third-party manufacturers fail to comply with applicable regulatory requirements at any stage during the regulatory process, such noncompliance could result in:
 	 	 	
 	Ø	refusals or delays in the approval of applications or supplements to approved applications;	
 	Ø	refusal of a regulatory authority, including the FDA, to review pending market approval applications or supplements to approved applications;	
 	Ø	warning letters;	
 	Ø	import or export restrictions;	
 	Ø	product recalls or seizures;	
 	Ø	injunctions;	
 	Ø	total or partial suspension of production;	
 	Ø	fines, civil penalties or criminal prosecutions; and	
 	Ø	withdrawals of previously approved marketing applications or licenses.	
          In addition, any approved products are subject to continuing regulation. Among other things, the holder of an approved biologic license application or new drug application is subject to periodic and other FDA monitoring and reporting obligations, including obligations to monitor and report adverse events and instances of the failure of a product to meet the specifications in the biologic license application or new drug application. Application holders must also submit advertising and other promotional material to the FDA and report on ongoing clinical trials. Failure to meet these post-approval requirements can result in criminal prosecution, fines or other penalties, injunctions, recall or seizure of products, total or partial suspension of production, or denial or withdrawal of pre-marketing product approvals.

29

          Legislative and regulatory proposals have been made to expand post-approval requirements and restrict sales and promotional activities for pharmaceutical products. We are not sure whether additional legislative changes will be enacted, or whether the FDA regulations, guidance or interpretations will be changed, or what the impact of such changes on the marketing approvals of our product candidates, if any, may be. In addition, increased scrutiny by the U.S. Congress of the FDA’s approval process may significantly delay or prevent marketing approval, as well as subject us to more stringent product labeling and post-marketing testing and other requirements.

Even if we are granted regulatory approval in one jurisdiction, we may not receive regulatory approval in another jurisdiction.

          Failure to obtain regulatory approval in foreign jurisdictions would prevent us from marketing our products abroad. In order to market our products in the European Union and many other jurisdictions outside the U.S., we must obtain separate regulatory approvals and comply with numerous foreign regulatory requirements. The approval procedure varies among countries and can involve additional testing. The time required to obtain approval may differ from that required to obtain FDA approval. The foreign regulatory approval process may include all of the risks associated with obtaining FDA approval. We may not obtain foreign regulatory approvals on a timely basis, if at all. Approval by the FDA does not ensure approval by regulatory authorities in other countries, and approval by one foreign regulatory authority does not ensure approval by regulatory authorities in other foreign countries or by the FDA. We may not be able to file for regulatory approvals and may not receive necessary approvals to commercialize our products in any market. The failure to obtain these approvals could materially harm our business, financial condition and results of operations.

          If we or our licensees fail to obtain or maintain requisite governmental approvals or fail to obtain or maintain approvals of the scope requested, it will delay or preclude us or our licensees or marketing partners from marketing our products. It could also limit the commercial use of our products. Any such failure or limitation may have a material adverse effect on our business, financial condition and results of operations.

Once approved, our products may not be accepted in the marketplace.

          Even if clinical trials demonstrate the safety and efficacy of our product candidates and all regulatory approvals are obtained, the commercial success of our products depends on gaining market acceptance among physicians, patients, third-party payors or the medical community. The degree of market acceptance will depend on many factors, including:
the scope of regulatory approvals, including limitations or warnings contained in a product’s regulatory-approved labeling;
establishment and demonstration of clinical efficacy and safety;
cost-effectiveness of our products;
alternative treatment methods and potentially competitive products; and
the availability of third-party reimbursement.

          Market acceptance could be further limited depending on the prevalence and severity of any expected or unexpected adverse side effects associated with our product candidates. If our product candidates are approved but do not achieve an adequate level of acceptance by physicians, third-party payors and patients, we may never generate significant revenue from these products, and our business, financial condition and results of operations may be materially harmed.

30

Our operations are subject to extensive environmental laws and regulations.

          Our operations are subject to federal, state and local environmental laws and regulations concerning, among other things, the generation, handling, storage, transportation, treatment and disposal of hazardous, toxic and radioactive substances and the discharge of pollutants into the air and water. Environmental permits and controls are required for some of our operations and these permits are subject to modification, renewal and revocation by the issuing authorities. If we were to become liable for an accident, or if we were to suffer an extended facility shutdown as a result of such contamination, we could incur significant costs, damages and penalties that could harm our business and exceed our resources or insurance coverage.

The successful commercialization of our product candidates will depend on obtaining health insurance coverage and reimbursement for use of these products from third-party payors and these payors may not agree to cover or reimburse for use of our products.

          Our future revenues and profitability will be adversely affected if U.S. and foreign governmental, private third-party insurers and payors, and other third-party payors, including Medicare and Medicaid, do not agree to defray or reimburse the cost of our products to the patients. If these entities refuse to provide coverage and reimbursement with respect to our products or provide an insufficient level of coverage and reimbursement, our products may be too costly for many patients to afford them, and physicians may not prescribe them. In addition, limitation on the amount of reimbursement for our products may also reduce our profitability. In the U.S. and some foreign jurisdictions, there have been, and we expect will continue to be, actions and proposals to control and reduce healthcare costs. There have been a number of legislative and regulatory changes and proposed changes regarding the healthcare system that could prevent or delay marketing approval for our product candidates, restrict or regulate post-approval activities and affect our ability to profitably sell any of our product candidates for which we obtain marketing approval. Government and other third-party payors are also challenging the prices charged for healthcare products and increasingly limiting, and attempting to limit, both coverage and level of reimbursement for prescription drugs.

          In the United States, the Medicare Modernization Act, or MMA, changed the way Medicare covers and pays for pharmaceutical products. The legislation expanded Medicare coverage for drug purchases by the elderly and introduced a new reimbursement methodology based on average sales prices for drugs. In addition, this legislation authorized Medicare Part D prescription drug plans to use formularies where they can limit the number of drugs that will be covered in any therapeutic class. As a result of this legislation and the expansion of federal coverage of drug products, we expect that there will be additional pressure to contain and reduce costs. These cost reduction initiatives and other provisions of this legislation could decrease the coverage and price that we receive for any approved products and could seriously harm our business. While the MMA applies only to drug benefits for Medicare beneficiaries, private payors often follow Medicare coverage policy and payment limitations in setting their own reimbursement rates, and any reduction in reimbursement that results from the MMA may result in a similar reduction in payments from private payors.

          In March 2010, President Obama signed into law the Patient Protection and Affordable Care Act and the Health Care and Education Reconciliation Act of 2010, which constitute sweeping health care reform legislation intended to broaden access to health insurance, reduce or constrain the growth of healthcare spending, enhance remedies against fraud and abuse, add new transparency requirements for healthcare and health insurance industries, impose new taxes and fees on the health industry and impose additional health policy reforms. Effective October 1, 2010, the health care reform legislation revised the definition of “average manufacturer price” for reporting purposes, which could increase the amount of Medicaid drug rebates to states. Further, beginning in 2011, the new health care reform legislation imposed a significant annual fee on companies that manufacture or import branded prescription drug products. Substantial new provisions affecting compliance have also been enacted, which may require us to modify our business practices with healthcare practitioners. We will not know the full effects of the health care reform legislation until applicable federal and state agencies issue regulations or guidance under the new law. Although it is too early to determine the effects of the health care reform legislation, it appears likely to continue the pressure on pharmaceutical pricing, especially under the Medicare program, and may also increase our regulatory burdens and operating costs. In addition, the Budget Control Act of 2011 mandates, among other things, reductions in Medicare payment rates if a sufficient deficit reduction plan is not approved, and a reduction in funding for Medicare, Medicaid or similar government programs may adversely affect our future results.

31

          Since our products will likely be too expensive for most patients to afford without health insurance coverage, if our products are unable to obtain adequate coverage and reimbursement by third-party payors our ability to successfully commercialize our product candidates may be adversely impacted. Any limitation on the use of our products or any decrease in the price of our products will have a material adverse effect on our ability to achieve profitability.

          In certain foreign countries, pricing, coverage and level of reimbursement of prescription drugs are subject to governmental control, and we may be unable to negotiate coverage, pricing, and reimbursement on terms that are favorable to us. In some foreign countries, the proposed pricing for a drug must be approved before it may be lawfully marketed. The requirements governing drug pricing vary widely from country to country. Our results of operations may suffer if we are unable to market our products in foreign countries or if coverage and reimbursement for our products in foreign countries is limited.

Risks Relating to Our Common Stock and our Convertible Notes

The price of our common stock has been, and may continue to be, volatile, which also may significantly affect the trading price of our convertible notes.

          Historically, the market price of our common stock has fluctuated over a wide range, and it is likely that the price of our common stock will continue to be volatile in the future. The market price of our common stock could be impacted due to a variety of factors, including, in addition to global and industry-wide events:
the level of revenues we generate from royalties we receive;
the losses we incur;
the results of preclinical testing and clinical trials by us, our collaborative partners or our competitors;
announcements of technical innovations or new products by us, our collaborative partners or our competitors;
the status of our corporate collaborations and supply arrangements;
regulatory approvals;
developments in patent or other proprietary rights owned or licensed by us, our collaborative partners or our competitors;
public concern as to the safety and efficacy of products developed by us or others; and
litigation.

          In addition, due to one or more of the foregoing factors in one or more future quarters, our results of operations may fall below the expectations of securities analysts and investors. In that event, the market price of our common stock could be materially and adversely affected. Volatility in the price of our common stock may significantly affect the trading price of our convertible notes.

32

Events with respect to our capital stock could cause the number of shares of our common stock outstanding to increase and thereby cause our stockholders to suffer significant dilution.

          Sales of substantial amounts of our common stock in the open market, or the availability of such shares for sale, could adversely affect the market price of our common stock. As of December 31, 2011, we had 48,292,702 shares of common stock outstanding. As of that date, the following securities that may be exercised for, or are convertible into, shares of our common stock were outstanding:
4% convertible senior notes due 2013 (the “2013 convertible notes”). As of December 31, 2011, our 2013 convertible notes could be converted into 13.6 million shares of our common stock at a conversion price of $9.55 per share.
Options. Stock options to purchase 3.1 million shares of our common stock at a weighted average exercise price of approximately $12.19 per share.
Restricted stock units. Approximately 0.7 million shares of our common stock are issuable in respect of outstanding restricted stock units held by officers, employees and directors.

          The shares of our common stock issuable upon the exercise of options, the settlement of restricted stock units and the conversion of the 2013 convertible notes are currently registered under the Securities Act of 1933, as amended, and, therefore, once those shares of common stock are issued, they may be eligible for public resale. As a result, if a large number of shares of our common stock are sold into the public market, or if there is an expectation of such sales, these sales or expectations of these sales, could reduce the market price of our common stock and impede our ability to raise future capital.

          The conversion of some or all of the convertible notes will dilute the ownership interests of existing stockholders. Any sales in the public market of the common stock issuable upon such conversion could adversely affect prevailing market prices of our common stock. In addition, the existence of the notes may encourage short selling by market participants because the conversion of the notes could depress the price of our common stock.

Anti-takeover provisions in our charter documents and under Delaware corporate law may make it more difficult to acquire us, even though such acquisitions may be beneficial to our stockholders.

          Provisions of our certificate of incorporation and bylaws, as well as provisions of Delaware corporate law, could make it more difficult for a third party to acquire us, even though such acquisitions may be beneficial to our stockholders. These anti-takeover provisions include:
lack of a provision for cumulative voting in the election of directors;
the ability of our board to authorize the issuance of “blank check” preferred stock to increase the number of outstanding shares and thwart a takeover attempt;
advance notice requirements for nominations for election to the board of directors or for proposing matters that can be acted upon by stockholders at stockholder meetings; and
limitations on who may call a special meeting of stockholders.

          Further, we have in place a stockholder rights plan, commonly known as a “poison pill.” The provisions described above, our stockholder rights plan and provisions of Delaware corporate law relating to business combinations with interested stockholders may discourage, delay or prevent a third party from acquiring us. These provisions may also discourage, delay or prevent a third party from acquiring a large portion of our securities, or initiating a tender offer, even if our stockholders might receive a premium for their shares in the acquisition over the then current market price. We also have agreements with our executive officers that provide for change of control severance benefits which provides for cash severance, restricted stock, restricted stock units and option award vesting acceleration and other benefits in the event our employees are terminated (or, in some cases, resign for specified reasons) following an acquisition or other change in control. These agreements could discourage a third party from acquiring us.

33

The issuance of preferred stock may adversely affect rights of our common stockholders.

          Under our certificate of incorporation, our board of directors has the authority to issue up to three million shares of “blank check” preferred stock and to determine the price, rights, preferences and privileges of those shares without any further vote or action by our stockholders. The rights of the holders of common stock will be subject to the rights of the holders of any shares of preferred stock that may be issued in the future. In addition to discouraging a takeover, as discussed above, this “blank check” preferred stock may have rights, including economic rights senior to the common stock, and, as a result, the issuance of such preferred stock could have a material adverse effect on the market value of our common stock.

The market for unrated debt is subject to disruptions that could have an adverse effect on the market price of the 2013 convertible notes, or a market for our notes may fail to develop or be sustained.

          The 2013 convertible notes are not rated. As a result, holders of the notes have the risks associated with an investment in unrated debt. Historically, the market for unrated debt has been subject to disruptions that have caused substantial volatility in the prices of such securities and greatly reduced liquidity for the holders of such securities. When the notes are traded, they may trade at a discount from their initial offering price, depending on, among other things, prevailing interest rates, the markets for similar securities, general economic conditions and our financial condition, results of operations and prospects. The liquidity of, and trading markets for, the notes also may be adversely affected by general declines in the market for unrated debt. Such declines may adversely affect the liquidity of, and trading markets for, the notes, independent of our financial performance or prospects. In addition, certain regulatory restrictions prohibit certain types of financial institutions from investing in unrated debt, which may further suppress demand for such securities. We cannot assure you that the market for the notes will not be subject to similar disruptions or that any market for our notes will develop or be sustained. Any such disruptions may have an adverse effect on the holders of the notes.

We may not have sufficient funds available to pay amounts due under our 2013 convertible notes.

          We may not have sufficient funds available or may be unable to arrange for additional financing to satisfy our obligations under our 2013 convertible notes. Our ability to pay cash to holders of the notes or meet our payment and other debt obligations depends on the level of our expenditures and our ability to generate sufficient cash flow in the future. This, to some extent, is subject to general economic, financial, competitive, legislative and regulatory factors, as well as other factors that are beyond our control. Also, the indenture governing our 2013 convertible notes does not contain any financial or operating covenants or restrictions on the payments of dividends, the incurrence of indebtedness or the issuance or repurchase of securities by us or any of our subsidiaries. We cannot assure you that our business will generate cash flow from operations, or that future borrowings will be available to us in an amount sufficient to enable us to meet our payment obligations under the notes and our other obligations and to fund other liquidity needs.

A small number of stockholders own a large percentage of our common stock and can influence the outcome of matters submitted to our stockholders for approval.

           A small number of our stockholders own a large percentage of our common stock and can therefore influence the outcome of matters submitted to our stockholders for approval. Based on information known to us as of February 14, 2012, our six largest stockholders collectively control a majority of our outstanding common stock. As a result, these stockholders collectively have the ability to influence the outcome of matters submitted to our stockholders for approval, including certain proposed amendments to our amended and restated certificate of incorporation (for example, amendments to increase the number of authorized shares) and any proposed merger, consolidation or sale of all or substantially all of our assets. These stockholders may support proposals and actions with which you may disagree. The concentration of ownership could also delay or prevent a change in control of our company or otherwise discourage a potential acquirer from attempting to obtain control of our company, which in turn could reduce the price of our common stock.

34

Item 1B. Unresolved Staff Comments

          None.

Item 2. Properties

          The following are all of the facilities that we currently lease:
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Location	 	 	Principal Operations	 	 	Approx.
Square
Footage	 	 	Approx.
Annual Rent	 	 	Lease Expiration	 	

	 	 	

	 	 	

	 	 	

	 	 	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
20 Kingsbridge Road Piscataway, NJ	 	 	Research & Development	 	 	56,000	 	 	$640,000(1)	 	 	July 31, 2021	 	
685 Route 202/206 Bridgewater, NJ	 	 	Subleased	 	 	19,000	 	 	$530,000(2)	 	 	January 31, 2013	 	
300 Corporate Ct. S. Plainfield, NJ	 	 	Subleased	 	 	24,000	 	 	$228,000(3)	 	 	October 31, 2012	 	

(1)	Under the terms of the lease, annual rent increases over the remaining term of the lease from $640,000 to $773,000.	
(2)	Amount shown in table represents our obligation to our landlord. The facility is being subleased by us to a third party for $413,000 per year through January 31, 2013.	
(3)	Amount shown in table represents our obligation to our landlord. The facility is being subleased by us to a third party for $294,000 per year through October 31, 2012.	
          We believe that our facilities are well maintained and generally adequate for our present and anticipated future needs.

          We sold a 56,000 square foot manufacturing facility in Indianapolis, Indiana, in January 2010 to the purchasers of our specialty pharmaceutical business at which we produced Abelcet, Oncaspar and Adagen for the Products segment and products we manufactured for others on a contract basis (Contract Manufacturing segment). We currently own no real property.

Item 3. Legal Proceedings

          From time to time, we are engaged in litigation arising in the ordinary course of our business. There is currently no pending material litigation to which we are a party or to which any of our property is subject.

Item 4. Mine Safety Disclosures

          Not applicable.

35

PART II.

Item 5. Market for the Registrant’s Common Equity, Related Stockholder Matters, and Issuer Purchases of Equity Securities

Market Information

          Our common stock is traded on the Nasdaq Global Market under the trading symbol “ENZN”.

          The following table sets forth the high and low sale prices for our common stock during the years ended December 31, 2011 and December 31, 2010 as reported by the Nasdaq Global Market. The quotations shown represent inter-dealer prices without adjustment for retail markups, markdowns or commissions, and may not necessarily reflect actual transactions.
 	 	 	 	 	 	 	 	
 	 	 	High	 	 	Low	 	

	 	

	 	
 	 	 	 	 	 	 	 	
Year Ended December 31, 2011	 	 	 	 	 	 	 	
First Quarter	 	$	12.61	 	$	10.00	 	
Second Quarter	 	 	11.82	 	 	9.93	 	
Third Quarter	 	 	10.46	 	 	7.03	 	
Fourth Quarter	 	 	8.10	 	 	6.13	 	
 	 	 	 	 	 	 	 	
Year Ended December 31, 2010	 	 	 	 	 	 	 	
First Quarter	 	$	11.37	 	$	8.86	 	
Second Quarter	 	 	11.52	 	 	9.25	 	
Third Quarter	 	 	11.35	 	 	10.15	 	
Fourth Quarter	 	 	12.71	 	 	10.50	 	
Performance Graph

          The following graph compares the percentage change in cumulative total stockholder return on our common stock for our fiscal years ended December 31, 2007 through December 31, 2011 with the cumulative total return over the same period of (i) the Nasdaq Composite Index and (ii) the Nasdaq Biotechnology Index.

36

          Total Return To Shareholders

          The comparison below displays the annual percentage return in an investment in our common stock, the Nasdaq Composite Index and the Nasdaq Biotechnology Index, and assumes reinvestment of dividends, if any. Historical stock prices are not indicative of future stock price performance.
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	ANNUAL RETURN PERCENTAGE	 	
 	 	Years Ending	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Company / Index	 	 	12/07	 	 	12/08	 	 	12/09	 	 	12/10	 	 	12/11	 	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	
Enzon Pharmaceuticals, Inc.	 	 	11.99	 	 	-38.82	 	 	80.62	 	 	15.48	 	 	-44.90	 	
Nasdaq Composite Index	 	 	9.81	 	 	-40.54	 	 	43.89	 	 	16.91	 	 	-1.80	 	
Nasdaq Biotechnology Index	 	 	4.58	 	 	-12.63	 	 	15.63	 	 	15.01	 	 	-11.81	 	
          The comparison below assumes $100 was invested on December 31, 2006 in our common stock, the Nasdaq Index and the Nasdaq Biotechnology Index, and assumes reinvestment of dividends, if any. Historical stock prices are not indicative of future stock price performance.
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	 	 	 	INDEXED RETURNS	 	
 	 	 	Base	 	Years Ending	 	
 	 	 	Period	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Company / Index	 	 	12/06	 	 	12/07	 	 	12/08	 	 	12/09	 	 	12/10	 	 	12/11	 	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	
Enzon Pharmaceuticals, Inc.	 	 	100	 	 	111.99	 	 	68.51	 	 	123.74	 	 	142.89	 	 	78.73	 	
Nasdaq Composite Index	 	 	100	 	 	109.81	 	 	65.29	 	 	93.95	 	 	109.84	 	 	107.86	 	
Nasdaq Biotechnology Index	 	 	100	 	 	104.58	 	 	91.38	 	 	105.66	 	 	121.52	 	 	135.86	 	
Holders

          As of March 6, 2012, there were 1,206 holders of record of our common stock.

Dividends

          We have never declared or paid any cash dividends on our common stock.

37

Repurchase of Equity Securities

Common Stock

          On December 21, 2010, we announced that our Board of Directors had authorized a share repurchase program under which we are authorized to repurchase up to $200 million of our outstanding common stock. During the third quarter of 2011, we suspended this share repurchase program. Since the inception of this share repurchase program, the cumulative number of shares repurchased and retired through December 31, 2011 amounts to 11,461,449 shares at a total cost of $121.5 million, or an average cost per share of approximately $10.60.

          We intend to resume repurchasing shares of outstanding common stock under this program. Share repurchases under this program may be made through open market or privately negotiated transactions at such time and in such amounts as we deem appropriate, based on a variety of factors such as price, corporate and regulatory requirements and overall market conditions. There can be no assurance as to the number of shares we will purchase, if any. The share repurchase program may be modified, suspended or terminated at any time without prior notice.
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
ISSUER PURCHASES OF EQUITY SECURITIES	 	

	 	
Period	 	(a) Total
Number of
Shares (or Units)
Purchased	 	(b) Average
Price Paid per
Share (or Unit)	 	(c) Total Number
of Shares (or
Units) Purchased
as Part of Publicly
Announced Plans
or Programs	 	(d) Maximum Number
(or Approximate Dollar
Value) of Shares (or
Units) that May Yet Be
Purchased Under the
Plans or Programs	 	

	 	

	 	

	 	

	 	

	 	
October 1, 2011 – October 31, 2011	 	 	—	 	 	—	 	 	—	 	$	78,490,135	 	
November 1, 2011 – November 30, 2011	 	 	—	 	 	—	 	 	—	 	$	78,490,135	 	
December 1, 2011 – December 31, 2011	 	 	—	 	 	—	 	 	—	 	$	78,490,135	 	
Total	 	 	—	 	 	—	 	 	—	 	$	78,490,135	 	
38

Item 6. Selected Financial Data

          The following selected financial data for the years ended December 31, 2011, 2010, 2009, 2008 and 2007 are derived from our audited financial statements. The selected financial data set forth below should be read in conjunction with our financial statements and the related notes thereto and “Management’s Discussion and Analysis of Financial Condition and Results of Operations” included elsewhere in this report.
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	2008	 	2007	 	

	 	

	 	

	 	

	 	

	 	
 	 	(in thousands, except per share data)	 	
Consolidated Statement of Operations Data: (1)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Total revenues (1)	 	$	48,072	 	$	97,865	 	$	51,408	 	$	56,969	 	$	65,161	 	
Research and development - pipeline	 	 	40,180	 	 	49,883	 	 	45,639	 	 	43,484	 	 	45,522	 	
Gain on sale of royalty interest (2)	 	 	—	 	 	—	 	 	—	 	 	—	 	 	(88,666	)	
Other operating expenses	 	 	24,347	 	 	48,557	 	 	62,862	 	 	54,974	 	 	42,526	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Operating (loss) income	 	 	(16,455	)	 	(575	)	 	(57,093	)	 	(41,489	)	 	65,779	 	
Investment income, net	 	 	1,735	 	 	3,465	 	 	4,312	 	 	6,612	 	 	10,918	 	
Interest expense	 	 	(5,929	)	 	(6,315	)	 	(11,514	)	 	(12,681	)	 	(17,380	)	
Other, net, including investment impairment	 	 	91	 	 	288	 	 	5,008	 	 	1,246	 	 	954	 	
Income tax (expense) benefit	 	 	(205	)	 	337	 	 	2,085	 	 	(255	)	 	(1,525	)	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
(Loss) income from continuing operations	 	 	(20,763	)	 	(2,800	)	 	(57,202	)	 	(46,567	)	 	58,746	 	
Income and gain from discontinued operations, net of income tax (1)	 	 	—	 	 	180,043	 	 	57,885	 	 	43,852	 	 	24,307	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Net (loss) income	 	$	(20,763	)	$	177,243	 	$	683	 	$	(2,715	)	$	83,053	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
(Loss) earnings per common share - continuing operations:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic	 	$	(0.40	)	$	(0.05	)	$	(1.26	)	$	(1.05	)	$	1.34	 	
Diluted	 	$	(0.40	)	$	(0.05	)	$	(1.26	)	$	(1.05	)	$	0.81	 	
Earnings per common share - discontinued operations:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic	 	$	—	 	$	3.08	 	$	1.28	 	$	0.99	 	$	0.55	 	
Diluted (4)	 	$	—	 	$	3.08	 	$	1.28	 	$	0.99	 	$	0.33	 	
(Loss) earnings per common share - net (loss) income:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic	 	$	(0.40	)	$	3.03	 	$	0.02	 	$	(0.06	)	$	1.89	 	
Diluted (4)	 	$	(0.40	)	$	3.03	 	$	0.02	 	$	(0.06	)	$	1.14	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
No dividends have been declared.	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
39

 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	2008	 	2007	 	

	 	

	 	

	 	

	 	

	 	
 	 	(in thousands)	 	
Consolidated Balance Sheet Data:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Total current assets (1)	 	$	165,261	 	$	434,616	 	$	145,212	 	$	178,142	 	$	281,177	 	
Total current liabilities (3)	 	 	15,264	 	 	18,387	 	 	24,997	 	 	36,094	 	 	105,482	 	
Total assets (1)	 	 	343,209	 	 	488,857	 	 	332,749	 	 	349,253	 	 	420,357	 	
Notes payable (3)	 	 	129,499	 	 	134,499	 	 	250,050	 	 	267,550	 	 	275,000	 	
Total stockholders’ equity (1)	 	 	197,181	 	 	331,857	 	 	53,283	 	 	41,661	 	 	36,573	 	

(1)	In January 2010, we sold our specialty pharmaceutical business comprised of the previous Products and Contract Manufacturing segments. The sale has been treated as a discontinued operation. Accordingly, prior-year statement of operations information has been reclassified to segregate the revenues and expenses of the divested business from our continuing operations. The sale generated net cash proceeds of approximately $308.0 million, including $40.9 million of revenues from the sale of in-process research and development (reported as revenues in continuing operations). The net gain on the sale, excluding the revenues from the sale of in-process research and development, was $176.4 million (reported as income and gain from discontinued operations). See Note 22 of the accompanying consolidated financial statements.	
 	 	
(2)	We sold a 25-percent interest in our PEGINTRON royalty in August 2007. See Note 18 of the accompanying consolidated financial statements.	
 	 	
(3)	As of December 31, 2007, $72.4 million outstanding principal amount of 4.5% notes payable was due July 1, 2008 and was classified as a current liability. The 4.5% notes were repaid in full according to their terms in 2008.	
 	 	
(4)	In a period in which a loss from continuing operations is reported, all other computations of diluted per-share amounts for that period must be made exclusive of potential dilutive shares. For this reason, in the years ended December 31, 2011, 2010, 2009, and 2008, diluted earnings per share for discontinued operations and net income are the same as basic earnings per share. For the year ended December 31, 2007, diluted net earnings per share reflected the effects of dilutive shares.	
40

Item 7. Management’s Discussion and Analysis of Financial Condition and Results of Operations

          The following discussion of our financial condition and results of operations should be read together with our consolidated financial statements and notes to those statements included elsewhere in this Annual Report on Form 10-K.

Forward-Looking Information and Factors That May Affect Future Results

          The following discussion contains forward-looking statements within the “safe harbor” provisions of the Private Securities Litigation Reform Act of 1995. All statements contained in the following discussion, other than statements that are purely historical, are forward-looking statements. Forward-looking statements can be identified by the use of forward-looking terminology such as “believes,” “expects,” “may,” “will,” “should,” “potential,” “anticipates,” “plans,” or “intends” or the negative thereof, or other variations thereof, or comparable terminology, or by discussions of strategy. Forward-looking statements are based upon management’s present expectations, objectives, anticipations, plans, hopes, beliefs, intentions or strategies regarding the future and are subject to known and unknown risks and uncertainties that could cause actual results, events or developments to be materially different from those indicated in such forward-looking statements, including the risks and uncertainties set forth in Item 1A. Risk Factors. These risks and uncertainties should be considered carefully and readers are cautioned not to place undue reliance on such forward-looking statements. As such, no assurance can be given that the future results covered by the forward-looking statements will be achieved.

          The percentage changes throughout the following discussion are based on amounts stated in thousands of dollars and not the rounded millions of dollars reflected in this section.

Overview

          We are a biotechnology company dedicated to the research and development of innovative therapeutics for cancer patients with high unmet medical needs. We are managed as a single operating unit. Our drug development programs utilize two platforms – Customized PEGylation Linker Technology (Customized Linker Technology ® )and third-generation messenger ribonucleic acid (mRNA) antagonists utilizing the Locked Nucleic Acid (LNA) technology. We currently have four compounds in human clinical development - PEG-SN38, a PEGylated version of the active metabolite of the cancer drug irinotecan, and mRNA antagonists targeting Hypoxia-Inducible Factor-1α (HIF-1α), Survivin, and the Androgen Receptor (AR). In addition, we have novel LNA targets in various stages of preclinical research.

          We receive royalty revenues from licensing arrangements with other companies related to sales of products developed using our proprietary Customized Linker Technology – primarily PEGINTRON marketed by Merck & Co., Inc. (Merck).

          In order to better focus on our portfolio of innovative oncology programs, we divested our specialty pharmaceutical business comprised principally of what had previously been our Products and Contract Manufacturing segments. Prior to the January 29, 2010 closing of the transaction, we were a biopharmaceutical company involved in the development, manufacture, and commercialization of medicines for patients with cancer and other life-threatening conditions. We operated in three business segments: Products, Royalties, and Contract Manufacturing. We had a portfolio of four marketed products: Oncaspar, for first-line treatment of patients with acute lymphoblastic leukemia (ALL); DepoCyt, for the treatment of lymphomatous meningitis; Abelcet, for the treatment of invasive fungal infections; and Adagen, for the treatment of severe combined immunodeficiency disease. The contract manufacturing business involved the manufacture of products for other pharmaceutical companies.

          The Products and Contract Manufacturing segments constituted components of our business and the sale qualified for treatment as discontinued operations effective with the first quarter of 2010. Accordingly, the operations and cash flows of the Products and Contract Manufacturing segments have been eliminated from our reported continuing operations and have been classified as discontinued operations beginning in 2010. Prior-year information has been reclassified to conform to the current presentation.

41

          The sale of our specialty pharmaceutical business also involved the sale of certain in-process research and development associated with the divested products, which resulted in the potential receipt of certain contingent milestone payments, the potential receipt of certain royalties, and our provision of various transitional services to the purchaser. Each of these aspects of the transaction is discussed below in greater detail.

Results of Continuing Operations (in millions of dollars):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
Revenues:	 	 	 	 	 	 	 	 	 	 	
Royalties	 	$	40.9	 	$	44.9	 	$	51.4	 	
Sale of in-process research and development	 	 	5.0	 	 	40.9	 	 	—	 	
Contract research and development	 	 	1.5	 	 	9.3	 	 	—	 	
Miscellaneous income	 	 	0.7	 	 	2.8	 	 	—	 	

	

	 	

	

	 	

	

	 	
Total revenues	 	 	48.1	 	 	97.9	 	 	51.4	 	
Operating expenses:	 	 	 	 	 	 	 	 	 	 	
Research and development - pipeline	 	 	40.2	 	 	49.9	 	 	45.6	 	
Research and development - specialty and contracted services	 	 	1.0	 	 	7.2	 	 	24.6	 	
General and administrative	 	 	17.3	 	 	25.4	 	 	37.6	 	
General and administrative - contracted services	 	 	0.1	 	 	2.0	 	 	—	 	
Restructuring charge	 	 	6.0	 	 	14.0	 	 	0.7	 	

	

	 	

	

	 	

	

	 	
Operating loss	 	 	(16.5	)	 	(0.6	)	 	(57.1	)	
Other expense	 	 	(4.1	)	 	(2.5	)	 	(2.2	)	
Income tax (expense) benefit	 	 	(0.2	)	 	0.3	 	 	2.1	 	

	

	 	

	

	 	

	

	 	
Loss from continuing operations	 	$	(20.8	)	$	(2.8	)	$	(57.2	)	

	

	 	

	

	 	

	

	 	
Overview

          The sale of the specialty pharmaceutical business in January 2010 had numerous effects on our financial results and makes year-to-year comparisons and inferences regarding future trends difficult. Even after reclassifying the majority of revenues and expenses of the divested business as discontinued operations, several large and unique items remain that are reported as part of continuing operations but that are not expected to be recurring events:
The sale of in-process research and development for $40.9 million in 2010 and the related $5.0 million milestone payment received in 2011 were part of the total sale of the specialty pharmaceutical business but are reported as part of continuing operations because we continue to operate as a research and development organization.
Revenues from a transition services agreement entered into with the purchaser of the specialty pharmaceutical business totaling $11.8 million in 2010 (contract research and development and the majority of miscellaneous income) diminished significantly in 2011 and we expect no meaningful activity in 2012.
Operating expenses for research and development contracted services in 2010 largely represented the expenses incurred ($5.5 million) in support of the transition services revenues mentioned above and also diminished significantly in 2011 to approximately $1.0 million. Also in this caption are the expenses incurred by us prior to the sale of the specialty pharmaceutical business in support of the products we owned at that time ($1.7 million in 2010 and $24.6 million in 2009).

42

          After taking these items and the restructuring charges of $6.0 million and $14.0 million in 2011 and 2010, respectively, into account, visibility of the underlying trends we have experienced in royalty revenues, research and development spending and general and administrative expenses is enhanced. These and other elements of our statements of operations are discussed more fully below.

Royalty Revenues (in millions of dollars):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	%
Change	 	2010	 	%
Change	 	2009	 	

	 	

	 	

	 	

	 	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Royalty revenue	 	$	40.9	 	 	(9	)	$	44.9	 	 	(13	)	$	51.4	 	

	

	 	 	 	 	

	

	 	 	 	 	

	

	 	
          The majority of royalty revenue relates to sales of PEGINTRON, a PEG-enhanced version of the alpha-interferon product, INTRON A, marketed by Merck, for the treatment of chronic hepatitis C. Other royalty revenues and certain licensing revenues relate to the application of our technology to third-party products including those under a cross-license agreement with Nektar Therapeutics, Inc. (Nektar) under which we receive a share of the royalties and licensing income received by Nektar. There are currently two third-party products for which Nektar has granted sublicenses to our PEGylation technology and for which we are participating in royalty and licensing income revenues: UCB’s CIMZIA for the treatment of Crohn’s disease and rheumatoid arthritis in the European Union and OSI and Pfizer’s Macugen for the treatment of neovascular (wet) age-related macular degeneration. There were previously three products for which Nektar had granted sublicenses to our PEGylation technology, but our right to receive royalties on sales of Pegasys ended, by contract, effective in October 2009. We are also entitled to royalties from the purchaser of the specialty pharmaceutical business of 5 to 10 percent on incremental net sales through 2014, above a 2009 baseline amount, from the four marketed products we sold to them.

          Royalty revenue declined approximately 9 percent in 2011 compared to 2010. This was driven almost entirely by lower sales of PEGINTRON, which also declined approximately 9 percent during the same period. In May 2011, the U.S. Food and Drug Administration (“FDA”) approved VICTRELIS ™  (boceprevir), for the treatment of chronic hepatitis C (CHC). VICTRELIS is approved for the treatment of CHC genotype 1 infection, in combination with peginterferon alfa and ribavirin, in adult patients (18 years of age and older) with compensated liver disease, including cirrhosis, who are previously untreated or who have failed previous interferon and ribavirin therapy. In addition, in May 2011, the FDA also approved INCIVEK (telaprevir) to treat certain adults with chronic hepatitis C infection. INCIVEK is used for patients who have either not received interferon-based drug therapy for their infection or who have not responded adequately to prior therapies. INCIVEK is approved for use in combination with peginterferon alfa and ribavirin. We believe that the approval of these drugs may result in increased sales of PEGINTRON in the future; however, we have no clear evidence at this point of what impact, if any, these new therapies for hepatitis C may have on sales of PEGINTRON. Royalties on net sales of CIMZIA and Macugen were relatively flat for 2011 versus 2010, while royalties on the on net sales of the four divested marketed products declined by approximately 17% year-over-year.

          Royalty revenue declined approximately 13 percent in 2010 compared to 2009. This was primarily the result of declining sales of PEGINTRON, which were 11 percent lower during the same period. Further contributing to the full-year decline was the absence of royalties from Pegasys in 2010, partially offset by growth in sales of CIMZIA. Macugen royalties were flat for the year. During 2010, we recognized for the first time royalties earned on net sales of products we divested as part of the sale of the specialty pharmaceutical business.

           Our future revenues are heavily weighted towards royalties and revenues to be received from the use of our technology and are dependent upon numerous factors outside of our control. We derive almost all of our royalties from sales of PEGINTRON, which have been in decline since 2008. Merck’s obligation to pay us royalties on sales of PEGINTRON terminates, on a country-by-country basis, upon the later of the date on which the last patent to contain a claim covering PEGINTRON expires in the country or 15 years after the first commercial sale of PEGINTRON in such country. Currently, expirations of our right to receive royalties are expected to occur in 2016 in the U.S., 2018 in Europe and 2019 in Japan.

43

          In 2007, we sold a 25% interest in PEGINTRON royalties. Accordingly, amounts reflected above represent our 75% share of total royalties remitted by Merck. The royalty sale agreement contained a provision under which we could receive an additional $15.0 million in the first quarter of 2012 if the purchaser received a certain threshold of royalties on net sales of PEGINTRON occurring from July 1, 2007 through December 31, 2011. As of December 31, 2011, this threshold was not reached and no additional payment is due from the purchaser.

          Other factors potentially affecting our royalty revenues include new or increased competition from products that may compete with the products for which we receive royalties, the effectiveness of marketing by our licensees, and new uses and geographies for PEGINTRON, CIMZIA and Macugen. Our rights to receive royalties on CIMZIA and Macugen will terminate in 2014.

Non-U.S. Revenue

          We recognized royalties on non-U.S. sales of $33.7 million, $37.9 million, and $42.3 million for the years ended December 31, 2011, 2010 and 2009, respectively, of which royalties recognized on sales in Europe were $11.6 million, $13.4 million, and $16.6 million, respectively. Our non-U.S. royalties are denominated in U.S. dollars and are included in total revenues.

Sale of In-Process Research and Development

          When we sold our specialty pharmaceutical business, we retained our research and development organization. We had been engaged in studies oriented towards the next-generation formulations of Oncaspar and Adagen, two products that were among those sold as part of the specialty pharmaceutical business. The in-process research and development related to Oncaspar and Adagen was sold to the purchaser of the specialty pharmaceutical business and, in connection with the sale, $40.9 million was recognized as revenue in the first quarter of 2010. During the first quarter of 2011, we earned and recognized an additional $5.0 million milestone payment related to divested in-process research and development. The selling price of the in-process research and development represented management’s best estimate of its standalone fair value based on the stage of development and future milestone payment consideration. All necessary technology and know-how were transferred to the purchaser at the time of the sale and the purchaser could resell the in-process research and development asset. At the time of the sale, the activities necessary to complete the work on the Oncaspar and Adagen next-generation formulations could have been performed by the purchaser or others.

Contract Research and Development Revenue

          Pursuant to a transition services agreement entered into at the time of the sale of the specialty pharmaceutical business, we began performing product-support research and development, consulting and technology transfer functions for the purchaser effective with the close of the sale transaction on January 29, 2010. The transition services associated with product-support research and development are being reported in continuing operations due to our ongoing involvement in the research and development related to the divested products. We are being compensated for this work at actual cost plus a mark-up per the terms of the transition services agreement. Revenue was generated from these services in the amount of $1.5 million and $9.3 million for the years ended December 31, 2011 and 2010, respectively. Our contractual obligation is to assist with these transition services for a period of up to three years subsequent to the date of the sale, although the level of such activity declined significantly during 2011and we do not expect meaningful activity or revenue under this transaction services agreement in 2012.

44

Miscellaneous Income

          Miscellaneous income includes rental receipts totaling approximately $0.6 million and $0.3 million in 2011 and 2010, respectively, in connection with the sublease of unused manufacturing and excess office facilities for which we have ongoing lease commitments. The underlying rental expense is reflected in general and administrative expense. In addition, as part of the transition services agreement referred to above, we were compensated for various general and administrative services provided to the purchaser of the specialty pharmaceutical business. The compensation for this work includes reimbursement of costs incurred plus a mark-up defined in the agreement. Approximately $0.1 million and $2.5 million have been earned for these services through December 31, 2011 and 2010, respectively. The expenses incurred in relation to these services are reported as general and administrative – contracted services. Our involvement in the transitioning of general and administrative activities has essentially concluded during 2011.

Research and Development Expenses – Pipeline (in millions of dollars):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	%
Change	 	2010	 	%
Change	 	2009	 	

	 	

	 	

	 	

	 	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Research and development expenses	 	$	40.2	 	 	(19	)	$	49.9	 	 	9	 	$	45.6	 	

	

	 	 	 	 	

	

	 	 	 	 	

	

	 	
          Research and development expenses consist primarily of contractor fees principally related to clinical projects; costs related to research and development collaborations or licenses; drug supplies for preclinical and clinical activities; salaries, stock-based compensation and benefits; other research supplies and facilities charges.

          For the year ended December 31, 2011, research and development expenses decreased 19 percent to $40.2 million. We invested in the following programs during 2011:

PEG-SN38 – Spending on PEG-SN38 increased in 2011 as clinical activity increased in the Phase II metastatic colorectal cancer study, the Phase II metastatic breast cancer study, and the Phase I pediatric study.

          We completed enrollment in the Phase II trial for patients with metastatic colorectal cancer. This study was designed to evaluate two groups of colorectal patients who have failed two prior therapies including irinotecan and oxaliplatin, those with K-RAS mutation and those that have non-mutated K-RAS tumors. The study enrolled approximately 220 patients. The non-mutated K-RAS group was randomized into two arms - one treated with PEG-SN38 in combination with Erbitux and the other arm treated with irinotecan in combination with Erbitux.

          The Phase II study for patients with metastatic breast cancer was designed to evaluate the efficacy of single-agent PEG-SN38 in two groups of patients who have received prior therapy regimens of anthracycline and taxane or anthracycline, taxane and Xeloda. Irinotecan has been evaluated and shown to be active in patients with breast cancer. All 164 patients enrolled were treated with single agent PEG-SN38, and enrollment was completed during 2011.

          We continued enrollment in our Phase I study for pediatric patients with cancer. This study is designed to find the recommended dose of PEG-SN38 in pediatric patients. We expect to complete this Phase I study in 2012. Additionally, a Phase I study of PEG-SN38 and bevacizumab at the National Cancer Institute, Bethesda, MD, in patients who failed multiple prior chemotherapy regimens is continuing to enroll patients.

45

          We are currently seeking a strategic partner to further develop and commercialize PEG-SN38. Absent such a partnership, we do not intend to fund further development of PEG-SN38.

HIF-1α antagonist – Spending on the HIF-1α antagonist program remained unchanged for 2011 versus 2010. Spending for 2010 was substantially lower than 2009 due to elevated costs experienced in 2009 for the production of clinical trial supplies. Enrollment was completed in the two Phase I studies in patients with solid tumors and lymphoma to evaluate the safety of the HIF-1α mRNA antagonist using two different dosing schedules. In general, HIF-1α antagonist therapy has been well tolerated, and many patients have received multiple cycles. We have observed tumor shrinkage in patients with renal cell cancer, liver cancer, sarcoma, and cancer of the tonsil. A pilot study in patients with cancer in the liver is open at the National Cancer Institute.

Survivin antagonist – Spending on the Survivin mRNA antagonist program decreased in 2011 versus 2010. Spending on Survivin in 2009 included a $1.0 million milestone payment and the costs of production of clinical trial supplies. Comparable milestone payments and expenses of producing clinical trial materials were not incurred in 2010. Enrollment was completed in our Phase I study. The study was designed to gain dose and safety information both as a single agent and in combination with Taxotere.

Androgen Receptor (AR) antagonist – Spending on the AR mRNA antagonist program declined in 2011 versus 2010, when spending accelerated as enabling activities related to an Investigational New Drug (IND) were conducted. This included toxicology and preclinical work that led to the filing and subsequent acceptance on an IND application in November 2010. In connection with the filing, we made a $2.0 million milestone payment to Santaris in the fourth quarter of 2010.

Additional LNA targets – Under our agreement with Santaris we will have the right to develop and commercialize RNA antagonists directed against additional novel oncology gene targets selected by us. We are evaluating these compounds in early preclinical studies. Any one of these compounds could be returned to Santaris if the findings of our preclinical or clinical work do not support continued investigation. In 2010, we incurred milestone payments totaling $5.0 million for the commencement of preclinical studies for three of our targets (in addition to the $2.0 million milestone payment for the AR antagonist IND referred to above). In 2011, there were no milestone payments due to Santaris on our remaining targets.

Research and Development Expenses – Specialty and Contracted Services

          Expenses associated with generating contract research and development revenue amounted to $1.0 million and $5.5 million in 2011 and 2010, respectively. Also included in the 2010 line caption are the $1.6 million of costs for the period from January 1 through January 29, 2010 incurred in our research and development activities related to the marketed products we previously owned. Spending for 2009 of $24.6 million reflects a full year of these same costs. This work was directed largely towards securing and maintaining a reliable supply of the ingredients used in the production of Oncaspar and Adagen, including development of new formulations of each.

46

General and Administrative Expenses (in millions of dollars):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	%
Change	 	2010	 	%
Change	 	2009	 	

	 	

	 	

	 	

	 	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
General and administrative expenses	 	$	17.3	 	 	(32	)	$	25.4	 	 	(32	)	$	37.6	 	

	

	 	 	 	 	

	

	 	 	 	 	

	

	 	
          General and administrative expenses consist primarily of salaries and benefits for support functions; outside professional services for accounting, audit, tax, legal, and financing activities; patent filing fees and facilities costs.

          For the year ended December 31, 2011, general and administrative expenses were $17.3 million, down 32 percent from the prior year. The decline from the preceding year was largely the result of a restructuring program implemented in the fourth quarter of 2010, which reduced the number of employees and therefore the associated payroll costs, as well as the effects of our on-going cost containment efforts, including consolidation of facilities into the Piscataway, New Jersey location from our former Bridgewater, New Jersey headquarters facility.

          For the year ended December 31, 2010, general and administrative expenses were $25.4 million, down 32 percent from the prior year. The reduction from the preceding year was largely due to the contraction of corporate services and overhead costs resulting from the first-quarter 2010 sale of the specialty pharmaceutical business. A significant portion of the year-over-year decrease is related to compensation. The restructuring program implemented during the first quarter of 2010 and the resulting reduction in employees was reflected in lower payroll costs during the latter half of the year. Accelerated vesting of share-based awards in the fourth quarter of 2009 resulted in a reduction in 2010 of the charges related to the vesting of these awards for all but certain senior management and board members. Offsetting these favorable influences on compensation expense in 2010, in part, was the shift of a portion of the 2009 executive bonus expense recognition out of 2009 and into 2010. A fourth-quarter 2009 adjustment was made to annual executive bonuses paying them one-half in cash and one-half in nonvested shares that vested over the twelve months of 2010.

          In addition to reductions in compensation expenses, we also made concerted efforts to reduce contracted services, accounting and consulting fees in 2010. During 2009, certain general and administrative expenses were elevated, including legal costs related to a proposed shareholder consent solicitation and the post-implementation costs of an enterprise resource planning (ERP) computer software system.

          As outlined above, we have made significant progress in reducing general and administrative expenses and will continue to seek and implement efficiencies that could potentially lead to further reductions. However, the rate of improvement experienced during 2011 and 2010 is not expected to continue.

General and Administrative Expenses – Contracted Services

          As part of the transition services agreement with the purchaser of the specialty pharmaceutical business, we provided certain general, administrative, financial, legal, human resource and information technology services for a period of up to one year. We were compensated for these services based upon costs incurred plus a mark-up defined in the transition services agreement. During the years ended December 31, 2011 and 2010, expenses associated with generating this revenue were approximately $0.1 million and $2.0 million, respectively. This administrative support activity effectively concluded during 2011.

47

Restructuring

          As a result of our transition from a fully integrated biopharmaceutical company with research, manufacturing and marketing operations to a biotechnology company dedicated to oncology research and development, we undertook reductions in our workforce during 2011, 2010 and 2009. In connection with our decision to exit our former headquarters facility in Bridgewater, New Jersey, we also incurred lease-related charges and wrote-off certain furnishings and leasehold improvements in 2011 and 2010.

          We incurred the following costs in connection with our restructuring programs during the years ended December 31, 2011, 2010 and 2009 (in thousands of dollars):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
Employee separation benefits:	 	 	 	 	 	 	 	 	 	 	
Fourth-quarter 2011	 	$	1,485	 	$	—	 	$	—	 	
Third-quarter 2011	 	 	2,835	 	 	—	 	 	—	 	
Second-quarter 2011	 	 	734	 	 	—	 	 	—	 	
Fourth-quarter 2010	 	 	(72	)	 	2,974	 	 	—	 	
First-quarter 2010	 	 	(60	)	 	9,736	 	 	—	 	
First-quarter 2009	 	 	—	 	 	—	 	 	693	 	

	

	 	

	

	 	

	

	 	
 	 	 	4,922	 	 	12,710	 	 	693	 	
Other restructuring costs:	 	 	1,103	 	 	1,316	 	 	—	 	

	

	 	

	

	 	

	

	 	
Total restructuring charges	 	$	6,025	 	$	14,026	 	$	693	 	

	

	 	

	

	 	

	

	 	
          During the fourth quarter of 2011, we recorded total restructuring charges in the amount of $1.4 million, of which $1.1 million related to the departure of our Chief Operating Officer for severance payments and benefits that are payable under the terms of the Amended and Restated Severance Agreement. Additionally, there were several research and development positions identified for elimination resulting in a charge of approximately $0.3 million for separation benefits.

          During the third quarter of 2011, we announced a plan to reduce our workforce and operating costs to more closely align its resources and capital with our on-going research and development activities. The reduction in force will reduce the number of employees by approximately 48 percent, to a total of approximately 47, by June 2012. Separation payments will be made for up to a year following the respective separations. We expect the reduction in force to result in approximately $6.0 million in reduced annualized operating expenses once the plan is fully implemented by the second quarter of 2012. In connection with this restructuring, we recorded a charge of approximately $2.9 million for separation benefits. Also during the third quarter of 2011, we recorded a restructuring charge in the amount of $0.7 million to terminate an operating lease related to the third and first floors of our former Bridgewater, New Jersey headquarters facility.

          During the second quarter of 2011, we recorded a restructuring charge in the amount of $0.7 million related to the departure of our Executive Vice President, Human Resources & Administration for severance payments and benefits that are payable under the terms of the Severance and Release Agreement.

          During the first quarter of 2011, we recorded a restructuring charge in the amount of $0.4 million related to the excess of committed lease costs over potential sublease income for office space in Bridgewater, New Jersey that was vacated during the quarter when the Company relocated its corporate headquarters to Piscataway, New Jersey.

          The fourth-quarter 2010 restructuring program was part of our continued efforts to streamline corporate administrative operations and affected approximately 33 employees. The majority of the terminations occurred during the first quarter of 2011, and separation payments will be made for up to a year following the respective separations. In connection with this restructuring, the Company recorded a charge of approximately $3.0 million for separation benefits.

48

          During the second quarter of 2010, we wrote off certain leasehold improvements and furnishings located at our former headquarters facility in Bridgewater, New Jersey that were determined to be excess and without future value as a result of the termination and relocation of several employees. The noncash charge related to this write off was approximately $0.9 million. During the third quarter of 2010, we entered into a sublease for a portion of our excess corporate facilities. These facilities became unused as a result of the reductions in workforce stemming from earlier restructuring efforts. The charge of approximately $0.4 million represents the excess of our contractual lease commitment over the amount of cash to be received from the subtenant over the life of the sublease arrangement

          During the first quarter of 2010, we recorded restructuring charges of $9.7 million, of which $6.1 million was for separation benefits resulting from a workforce reduction involving 64 employees. These actions related primarily to the sale of the specialty pharmaceutical business, including several employees who were previously engaged in activities related to the divested business but who did not transfer to the employment of the purchaser. These employees were provided with separation benefits after certain transition periods during which they assisted with an orderly transfer of activities and information to the purchaser. We also reassessed our staffing requirements subsequent to the sale of the specialty pharmaceutical business in light of the lessened demands on many of our general and administrative functions. Additionally, our former President and Chief Executive Officer resigned from the Company effective February 22, 2010, resulting in $3.6 million of expenses for severance payments and benefits that were payable per the terms of the individual’s employment agreement.

          Corporate restructuring costs associated with the 2009 workforce reduction amounted to $0.7 million during the first quarter of 2009. This represents separation benefits and related costs of terminated employees in general and administrative areas as well as research and development.

Other Income (Expense) (in millions of dollars):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	%
Change	 	2010	 	%
Change	 	2009	 	

	 	

	 	

	 	

	 	

	 	
Other income (expense):	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Investment income, net	 	$	1.7	 	 	(50	)	$	3.5	 	 	(20	)	$	4.3	 	
Interest expense	 	 	(5.9	)	 	(6	)	 	(6.3	)	 	(45	)	 	(11.5	)	
Other-than-temporary investment impairment loss	 	 	—	 	 	n.m.	 	 	(0.9	)	 	n.m.	 	 	—	 	
Other, net	 	 	0.1	 	 	(92	)	 	1.2	 	 	(76	)	 	5.0	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
 	 	$	(4.1	)	 	60	 	$	(2.5	)	 	17	 	$	(2.2	)	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
          n.m. – not meaningful

          Net other expense for the three years ended December 31, 2011, 2010 and 2009 was $4.1 million, $2.5 million, and $2.2 million, respectively. The repurchase and conversion of a portion of our 4% notes during the three-year period affected the year-to-year comparisons in a number of ways (See Liquidity and Capital Resources below). Also, in 2010, two significant items that tended to offset one another were the recognition of an impairment in an investment holding and recognition of an award of a government grant. Further discussion of each of the individual items follows.

          Net investment income in 2011 was $1.7 million, a decline of 50% versus 2010 earnings. Net investment income in 2010 was $3.5 million, a decline of 20% versus $4.3 million earned in 2009. For the first three quarters of 2011 and for all of 2010, as debt securities matured in our portfolio the proceeds were held in money market funds as opposed to being reinvested in additional debt securities. The maturing higher-yielding securities were purchased several years earlier when prevailing interest rates were higher for all classes of debt holdings. As they matured, the proceeds were reinvested in lower-yielding money market funds in a historically low interest rate environment. During the fourth quarter of 2011, we resumed investing excess cash in a portfolio of marketable debt securities, although at much lower rates than the previous portfolio was earning.

49

          Interest expense includes amortization and, when debt is repurchased, the write-off of deferred debt issuance costs. Interest expense has continued to decline over the three-year period through 2011, from $11.5 million in 2009 to $6.3 million in 2010 to $5.9 million in 2011, due primarily to the conversion in the first quarter of 2010 of $115.6 million principal amount of our 4% notes into shares of our common stock in connection with the sale of the specialty pharmaceutical business. In the fourth quarter of 2011, we repurchased $5.0 million in principal amount of our 4% notes at par. In 2009, we repurchased $20.4 million in principal amount of our 4% notes. The write-off of deferred debt issuance costs was approximately $30,000 and $296,000 for the years ended December 31, 2011 and 2009, respectively.

          Other-than-temporary impairment losses on available-for-sale investment holdings representing credit losses are charged to earnings. We hold an investment in one auction rate security that we believe is more likely than not impaired due to the lack of credit worthiness of the issuer and its parent company. Consequently, the remaining carrying value of $0.9 million was written off during the third quarter of 2010.

          Other income in 2011 was not material to our results of operations. Other income in 2010 is primarily the receipt of a $1.2 million federal government grant for qualifying therapeutic discovery investments made by us in 2009 and 2010. A significant portion of other income in 2009 relates to gains realized on the repurchase of notes payable. During the first quarter of 2009, we repurchased $20.4 million in principal amount of our 4% notes at a discount to par, yielding a gross gain of $4.8 million, or $4.5 million net of the write-off of the related deferred debt issuance costs.

Discontinued Operations

          The cash proceeds received from the sale of the specialty pharmaceutical business, including a second-quarter 2010 working capital adjustment, amounted to approximately $308.0 million. Of this amount, $40.9 million was allocated to the sale of in-process research and development and included in continuing operations. The net proceeds then attributable to discontinued operations yielded a gain of $176.4 million. The results of operations of the specialty pharmaceutical business for the period in January 2010 preceding the sale amounted to income of $3.6 million comprising the remainder of the $180.0 reported in 2010 as income and gain from discontinued operations. Although the sale was a taxable event, no tax liability arose due to the basis we had in the underlying assets and the current year net operating loss.

          Under the terms of the asset purchase agreement, we also were entitled to receive up to an additional $27.0 million in milestone payments if certain conditions are met. Of this amount, we earned and received a $5.0 million milestone payment in the first quarter of 2011, and another $5.0 million is no longer considered likely to be received. There can be no assurance that we will receive any of the remaining $17.0 million in milestone payments. In addition, we may receive royalties of 5 to 10 percent on incremental net sales above a 2009 baseline amount of our then four marketed specialty pharmaceutical products through 2014. Revenue from these milestones and/or royalties is reflected as part of our continuing operations.

          Prior-year results of operations of the specialty pharmaceutical business have been reclassified as discontinued operations for comparability.

Income Taxes

          Income tax expense in 2011 was primarily comprised of foreign withholding taxes on repatriated funds. No federal income tax expense was incurred in relation to normal operating results due either to current period operating losses or the utilization of deferred tax assets to offset taxes that would otherwise accrue to operating income.

50

          Federal legislation, the American Recovery and Reinvestment Act of 2009, which allowed us to make an election to treat certain unused research and alternative minimum tax credit carryforwards as refundable in lieu of claiming bonus and accelerated depreciation for “eligible qualified property” placed in service through the end of 2009 was extended to 2010. This provided us with a $0.1 million benefit in 2010. The balance of the 2010 income tax benefit reflects a reduction of $0.2 million to state taxes payable.

          In November 2009, federal legislation was enacted under which we are able to carryback our 2009 alternative minimum tax net operating losses to the five previous years to offset the alternative minimum taxes that were not available to us for carryback prior to the new legislation. We recorded the impact of the carryback, estimated to be approximately $1.7 million, in the fourth quarter of 2009 and received a federal income tax cash refund in the first quarter of 2010. Other legislation in 2009 allowed us to make an election to treat certain unused research and alternative minimum tax credit carryforwards as refundable in lieu of claiming bonus and accelerated depreciation for “eligible qualified property” placed in service through the end of 2008. This provided us with a $0.5 million benefit in 2009. Offsetting these two tax benefit amounts which total $2.2 million was a $0.1 million charge related to an adjustment of state taxes payable.

Liquidity and Capital Resources

          Cash reserves, including cash, cash equivalents, and marketable securities, totaled $323.3 million as of December 31, 2011 and $460.1 million as of December 31, 2010. The decrease of $136.8 million was primarily attributable to $121.1 million, inclusive of transaction costs, used to repurchase shares of common stock and $5.0 million used to repurchase 4% notes outstanding.

          Cash used in operating activities of our continuing operations during 2011 was $12.7 million, as compared to $22.2 million of cash provided in 2010. As previously noted, during 2010 we disposed of our specialty pharmaceutical business which generated positive cash flows from operations. Therefore, the operating results in 2011 fully reflect the transition of the Company from a specialty pharmaceutical business to a pure biotech company with primary emphasis on research and development. The operating expenses incurred are partially funded by our royalty stream derived from sales of marketed products that utilize our proprietary technology.

          Cash used in investing activities amounted to $159.2 million in 2011 as compared to cash provided by investing activities in 2010 which amounted to $344 million. The most significant reason for the fluctuation in this category is due to the sale of the specialty pharmaceutical business in 2010, which generated cash proceeds of $262.6 million. In addition, in prior years, we were maintaining all proceeds from sale and maturities of marketable securities as cash and cash equivalents. In the fourth quarter of 2011, we resumed investing our cash and therefore, used net cash and cash equivalents of $158.6 million to purchase marketable securities.

          Cash used in financing activities in 2011 amounted to $121.2 million with the most significant transaction being the repurchase of our outstanding common stock which amounted to $120.8 million representing 11.5 million shares repurchased. The purchases were made pursuant to a $200.0 million share repurchase plan announced in December 2010 and, prior to that, a $50.0 million share repurchase plan announced in December 2009 and completed in the fourth quarter of 2010. During the third quarter of 2011, we decided to suspend the current $200.0 million share repurchase program. During the fourth quarter of 2011, we purchased $5.0 million of our outstanding 4% notes at par.

          We intend to resume repurchasing shares of outstanding common stock under our $200.0 million share repurchase program. Share repurchases under this program may be made through open market or privately negotiated transactions at such times and in such amounts as we deems appropriate, based on a variety of factors such as price, corporate and regulatory requirements and overall market conditions. There can be no assurance as to the number of shares we will purchase, if any. The share repurchase program may be modified, suspended or terminated at any time without prior notice.

51

          As of December 31, 2011, the principal amount of the 4% notes outstanding was $129.5 million. The sale of our specialty pharmaceutical business in January 2010 constituted a fundamental change under the indenture governing the notes, which triggered a requirement that we offer to purchase all of the notes at face value. On February 5, 2010, we initiated a tender offer to purchase for cash any and all of the notes at face value. The offer expired on March 5, 2010 with no notes having been tendered. The fundamental change also triggered a change in the conversion rate from 104.712 shares per $1,000 principal amount of notes to 116.535 shares per $1,000 principal amount of notes during the period January 29, 2010 to March 4, 2010. During this period, $115.6 million principal amount of the notes were converted into approximately 13.5 million shares of our common stock, reducing the principal balance of the notes outstanding to $134.5 million. Subsequent to the March 4, 2010, the date the enhanced conversion period ended, the original conversion rate of 104.712 shares per $1,000 principal amount is again in effect.

          Our current sources of liquidity are our cash reserves, interest earned on such cash reserves and royalties - primarily those related to sales of PEGINTRON. In January 2011, we earned and received a $5.0 million milestone payment in connection with the sale of the specialty pharmaceutical business. No further milestones related to the sale of the specialty pharmaceutical business are expected in 2012, and there can be no assurance that any of these milestones will be received in the future.

          Based upon our current planned research and development activities and related costs, our current sources of liquidity, the expected cash outflows from operations and the repurchase of up to $78.5 million of our outstanding common stock remaining from the previously announced $200.0 million share repurchase program, we anticipate our current cash reserves will be sufficient to meet our capital and operational requirements for the near future. While we believe that our current sources of liquidity will be adequate to satisfy our capital and operational needs for the near future, it is likely that we will need to obtain additional financing or enter into a collaborative arrangement to sustain our research and development efforts prior to the time we are able to commercialize any of our product candidates. There can be no assurance, however, that we will be able to obtain additional funds or engage a collaborator on acceptable terms, if at all. If we are unable to obtain adequate financing or collaborative support, we may be required to curtail our research and development activities and/or license our product candidates to third parties.

Off-Balance Sheet Arrangements

          As part of our ongoing business, we do not participate in transactions that generate relationships with unconsolidated entities or financial partnerships, such as entities often referred to as structured finance or special purpose entities, which would have been established for the purpose of facilitating off-balance sheet arrangements or other contractually narrow limited purposes. As of December 31, 2011, we were not involved in any off-balance sheet special purpose entity transactions.

          Our 4% notes are convertible at the option of the holder into shares of our common stock at a conversion price of $9.55 per share. At December 31, 2011, the potential dilutive effect of conversion of the 4% notes was 13.6 million shares using the conversion price of $9.55 per share or 104.712 shares per $1,000 principal amount of notes.

          In addition, stock options to purchase 3.1 million shares of our common stock at a weighted average exercise price of $12.19 per share and 0.7 million restricted stock units were outstanding at December 31, 2011, which represent additional potential dilution.

52

Contractual Obligations

          Contractual obligations represent future cash commitments and liabilities under agreements with third parties, and exclude contingent liabilities for which we cannot reasonably predict future payment. The following chart represents our contractual cash obligations as of December 31, 2011 (in millions):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Payments Due By Period	 	

	 	
 	 	Total	 	Less
than 1
Year	 	2 – 3
Years	 	4 – 5
Years	 	More
than 5
years	 	

	 	

	 	

	 	

	 	

	 	
Contractual Obligations and Commercial Commitments(1) (2)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Notes payable due June 1, 2013	 	$	129.5	 	$	—	 	$	129.5	 	$	—	 	$	—	 	
Operating lease obligations (3)	 	 	7.8	 	 	1.4	 	 	1.5	 	 	1.4	 	 	3.5	 	
Interest due on notes payable	 	 	7.4	 	 	5.2	 	 	2.2	 	 	—	 	 	—	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Totals	 	$	144.6	 	$	6.6	 	$	133.1	 	$	1.4	 	$	3.5	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
(1) Does not include potential milestone payments of $142.0 million to Santaris that are only payable upon successful development of all five mRNA targets selected by us.
(2)  Does not include separation payments and benefits of approximately $4.5 million to be made to exiting employees in connection with the 2011 restructurings.
(3)  Does not include lease revenues to be received pursuant to certain subleased facilities.

          As of December 31, 2011, we had $129.5 million of 4% convertible senior unsecured notes outstanding. These notes mature on June 1, 2013 unless earlier redeemed, repurchased or converted. The 4% notes rank equal to all future senior unsecured debt. If the closing price of our common stock for at least 20 trading days in the 30 consecutive trading day period ending on the date one day prior to the date of a notice of redemption is greater than 140 percent of the applicable conversion price on the date of such notice, we, at our option, may redeem the 4% notes in whole or in part, at a redemption price in cash equal to 100 percent of the principal amount of the 4% notes to be redeemed, plus accrued interest, if any, to the redemption date.

          We lease three facilities in New Jersey. Future minimum lease payments and commitments for operating leases total $7.8 million at December 31, 2011. In the third quarter of 2010, we entered into a sublease of a portion of the office space located in Bridgewater, New Jersey. The company terminated the third and first floor portions of the leased space during the third and fourth quarters of 2011 respectively. The remaining lease at Bridgewater, New Jersey, which has been subleased, will expire on January 31, 2013. In October 2009, we entered into a sublease of the South Plainfield facility under which we will receive rental income in excess of the rental expense being incurred under the original lease. Our use of the leased South Plainfield facility (not included in the sale of the specialty pharmaceutical business) has ended, but we continue to be primarily responsible for the obligations attendant to the continuing operating lease of the facility including returning the facility to its original condition upon expiration, if necessary. We may experience additional charges associated with the lease or its termination prior to the contractual expiration of the lease in October 2012.

          In July 2006, we entered into a license and collaboration agreement with Santaris pursuant to which we obtained exclusive rights worldwide, other than in Europe, to develop and commercialize RNA antagonists directed against the HIF-lα, Survivin and AR gene targets, as well as RNA antagonists directed against two additional gene targets selected by us. We will be responsible for making additional payments upon the successful completion of certain compound synthesis and selection, clinical development and regulatory milestones. Santaris also is eligible to receive royalties from any future product sales of products based on the licensed antagonists. Santaris retains the right to develop and commercialize products developed under the collaboration in Europe.

53

Critical Accounting Policies and Estimates

          A critical accounting policy is one that is both important to the portrayal of a company’s financial condition and results of operations and requires management’s most difficult, subjective or complex judgments, often as a result of the need to make estimates about the effect of matters that are inherently uncertain.

          Our consolidated financial statements are presented in accordance with accounting principles that are generally accepted in the U.S. All applicable U.S. GAAP accounting standards effective as of December 31, 2011 have been taken into consideration in preparing the consolidated financial statements. The preparation of the consolidated financial statements requires estimates and assumptions that affect the reported amounts of assets, liabilities, revenues, expenses and related disclosures. Some of those estimates are subjective and complex, and, consequently, actual results could differ from those estimates. The following accounting policies and estimates have been highlighted as significant because changes to certain judgments and assumptions inherent in these policies could affect our consolidated financial statements.

          We base our estimates, to the extent possible, on historical experience. Historical information is modified as appropriate based on current business factors and various assumptions that we believe are necessary to form a basis for making judgments about the carrying value of assets and liabilities. We evaluate our estimates on an ongoing basis and make changes when necessary. Actual results could differ from our estimates.

Revenues

          Royalties under our license agreements with third-parties and pursuant to the sale of our specialty pharmaceutical business are recognized when reasonably determinable and earned through the sale of the product by the third-party and collection is reasonably assured. Notification from the third-party licensee of the royalties earned under the license agreement is the basis for royalty revenue recognition. This information generally is received from the licensees in the quarter subsequent to the period in which the sales occur.

          Contingent payments due under the asset purchase agreement related to the sale of the specialty pharmaceutical business are recognized as income when the milestone has been achieved and collection is assured. Such payments are non-refundable, and no further effort is required on the part of the Company or the other party to complete the earning process. Non-refundable payments received upon entering into license and other collaborative agreements where we have continuing involvement are recorded as deferred revenue and recognized ratably over the estimated service period.

          The sale of the specialty pharmaceutical business involved the application of guidance regarding multiple deliverables in separating the revenues associated with the sale of in-process research and development from the other elements of the transaction, namely the assets sold as part of discontinued operations and our continuing involvement in contract research activities. We determined that the in-process research and development had value to the buyer of the specialty pharmaceutical business on a stand-alone basis and that there was objective and reliable evidence available to support the allocation of the total purchase price to the respective units of accounting.

Research and Development Expenses

          We accrue expenses for costs for work performed by contract research organizations, contract manufacturing organizations and others based upon the estimated amount of the total effort completed on each order, study or project using factors such as number of lots produced, number of patients enrolled, the number of active clinical sites and the duration for which the patients will be enrolled in the study. We base the estimates on the information available at the time. Additional information may come available at a later date that would enable us to develop a more accurate estimate. Such changes in estimate are generally recognized in the period when the information is first known.

54

Income Taxes

          Under the asset and liability method of accounting for income taxes, deferred tax assets and liabilities are recognized for the estimated future tax consequences attributable to differences between the financial statement carrying amounts of existing assets and liabilities and their respective tax bases and operating loss and tax credit carryforwards. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the years in which those temporary differences are expected to be recovered or settled. A valuation allowance on net deferred tax assets is provided for when it is more likely than not some portion or all of the deferred tax assets will not be realized. As of December 31, 2011, we believe, based on projections, that it is more likely than not that our net deferred tax assets, including our net operating losses from operating activities and stock option exercises, will not be realized. We recognize the benefit of an uncertain tax position that we have taken or expect to take on the income tax returns we file if it is more likely than not we will be able to sustain our position.

Stock-Based Compensation

          Compensation cost, measured by the fair value of the equity instruments issued, adjusted for estimated forfeitures, is recognized in the financial statements as the respective awards are earned. The impact that share-based payment awards will have on our results of operations is a function of the number of shares awarded, vesting and the trading price and fair value of our stock at date of grant or modification. Fair value of share-based payments is determined using the Black-Scholes valuation model which employs weighted average assumptions for expected volatility of our stock, expected term until exercise of the options, the risk free interest rate, and dividends, if any. Expected volatility is based on our historical stock price information.

55

 	 	
Item 7A.	Quantitative and Qualitative Disclosures About Market Risk	
          Our financial instruments are principally comprised of money market funds and marketable debt securities classified as available-for-sale. Apart from custodial accounts related to the Executive Deferred Compensation Plan, we do not invest in portfolio equity securities. We do not invest in commodities or use financial derivatives for trading purposes. We seek reasonable assuredness of the safety of principal and market liquidity by investing in rated fixed income securities while at the same time seeking to achieve a favorable rate of return. Our market risk exposure consists principally of exposure to changes in interest rates. Our holdings also are exposed to the risks of changes in the credit quality of issuers. All issuers are rated A1 or better at the time of purchase. We typically invest the majority of our investments in the shorter-end of the maturity spectrum. Cash equivalents are primarily held in a number of triple-A rated institutional money market funds as well as corporate and municipal entities’ debt securities.

          The table below presents the amortized cost, fair value and related weighted average interest rates by year of maturity for our available-for-sale securities, excluding those related to our Executive Deferred Compensation Plan, as of December 31, 2011 (in thousands):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Amortized Cost	 	 	 	 	 	 	 	

	 	 	 	 	 	 	 	
 	 	2012	 	2013	 	2014	 	Thereafter	 	Total	 	Fair Value	 	

	 	

	 	

	 	

	 	

	 	

	 	
Fixed Rate	 	$	55,616	 	$	29,742	 	$	111,764	 	$	—	 	$	197,122	 	$	197,145	 	
Weighted Average Rate	 	 	1.78	%	 	3.34	%	 	2.34	%	 	—	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Variable Rate	 	$	—	 	$	—	 	$	—	 	$	19,295	 	$	19,295	 	$	19,295	 	
Weighted Average Rate	 	 	—	 	 	—	 	 	—	 	 	0.20	%	 	 	 	 	 	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	$	216,417	 	$	216,440	 	

	

	 	

	

	 	
          Our 4% convertible senior unsecured notes in the principal amount of $129.5 million at December 31, 2011 are due June 1, 2013 and have a fair value of $129.8 million at December 31, 2011. Our outstanding convertible notes have a fixed interest rate. The fair value of the convertible notes is affected by changes in market rates of interest and the price of our common stock.
 	 	 	
Item 8.	Financial Statements and Supplementary Data	
 	 	 	
          Financial statements and notes thereto appear on pages F-1 to F-34 of this Annual Report on Form 10-K.	
 	
Item 9.	Changes in and Disagreements with Accountants on Accounting and Financial Disclosure	
 	 	 	
          Not Applicable.	
 	
Item 9A.	Controls and Procedures	
 	 	
(a)	Evaluation of Disclosure Controls and Procedures	
          Our management, under the direction of our Principal Executive Officer and Principal Financial Officer, has evaluated the effectiveness of our disclosure controls and procedures (as defined in Rules 13a-15(e) and 15d-15(e) under the Securities Exchange Act of 1934, as amended, (the “Exchange Act”) as of December 31, 2011. Based on that evaluation, our Principal Executive Officer and Principal Financial Officer has concluded that our disclosure controls and procedures were effective as of December 31, 2011.

56

 	 	
(b)	Changes in Internal Control Over Financial Reporting	
          There were no changes in our internal control over financial reporting, as such term is defined in Rules 13a-15(f) and 15d-15(f) under the Exchange Act, during the quarter ended December 31, 2011 that have materially affected, or are reasonably likely to materially affect, our internal control over financial reporting.
 	 	
(c)	Management’s Report on Internal Control over Financial Reporting	
          It is the responsibility of the management of Enzon Pharmaceuticals, Inc. and subsidiaries to establish and maintain effective internal control over financial reporting (as defined in Rule 13a-15(f) under the Exchange Act). Internal control over financial reporting is designed to provide reasonable assurance to Enzon’s management and board of directors regarding the preparation of reliable consolidated financial statements for external purposes in accordance with generally accepted accounting principles.

          Enzon’s internal control over financial reporting includes those policies and procedures that: (i) pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of the assets of Enzon; (ii) provide reasonable assurance that transactions are recorded as necessary to permit preparation of consolidated financial statements in accordance with generally accepted accounting principles, and that receipts and expenditures of Enzon are being made only in accordance with authorizations of management and directors of Enzon; and (iii) provide reasonable assurance regarding the prevention or timely detection of unauthorized acquisition, use or disposition of Enzon’s assets that could have a material effect on the consolidated financial statements of Enzon.

          Because of its inherent limitations, internal control over financial reporting may not prevent or detect misstatements. Therefore, even those systems determined to be effective can provide only reasonable assurance with respect to financial statement preparation and presentation.

          Management has performed an assessment of the effectiveness of Enzon’s internal control over financial reporting as of December 31, 2011 based upon criteria set forth in Internal Control - Integrated Framework issued by the Committee of Sponsoring Organizations of the Treadway Commission (COSO). Based on this assessment, management has concluded that our internal control over financial reporting was effective as of December 31, 2011.

          Our independent auditor, KPMG LLP, an independent registered public accounting firm, has issued an auditors’ report on the effectiveness of internal control over financial reporting as of December 31, 2011. The auditor’s report follows.
 	 	 	 	
/s/ Ana I. Stancic	 	/s/ Timothy G. Daly	 	

	 	

	 	
Ana I. Stancic	Timothy G. Daly	
Principal Executive Officer,	Vice President, Controller and	
Executive Vice President,	Chief Accounting Officer	
Chief Operating Officer and	(Principal Financial Officer and	
Chief Financial Officer	Principal Accounting Officer)	
 	 	
          March 12, 2012	          March 12, 2012	
57

 	 	
(d)	Report of Independent Registered Public Accounting Firm	
The Board of Directors and Stockholders
Enzon Pharmaceuticals, Inc.:

          We have audited Enzon Pharmaceuticals, Inc.’s internal control over financial reporting as of December 31, 2011, based on criteria established in  Internal Control — Integrated Framework  issued by the Committee of Sponsoring Organizations of the Treadway Commission (COSO). Enzon Pharmaceuticals, Inc.’s management is responsible for maintaining effective internal control over financial reporting and for its assessment of the effectiveness of internal control over financial reporting, included in the accompanying Management’s Report on Internal Control over Financial Reporting. Our responsibility is to express an opinion on the Company’s internal control over financial reporting based on our audit.

          We conducted our audit in accordance with the standards of the Public Company Accounting Oversight Board (United States). Those standards require that we plan and perform the audit to obtain reasonable assurance about whether effective internal control over financial reporting was maintained in all material respects. Our audit included obtaining an understanding of internal control over financial reporting, assessing the risk that a material weakness exists, and testing and evaluating the design and operating effectiveness of internal control based on the assessed risk. Our audit also included performing such other procedures as we considered necessary in the circumstances. We believe that our audit provides a reasonable basis for our opinion.

          A company’s internal control over financial reporting is a process designed to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles. A company’s internal control over financial reporting includes those policies and procedures that (1) pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of the assets of the company; (2) provide reasonable assurance that transactions are recorded as necessary to permit preparation of financial statements in accordance with generally accepted accounting principles, and that receipts and expenditures of the company are being made only in accordance with authorizations of management and directors of the company; and (3) provide reasonable assurance regarding prevention or timely detection of unauthorized acquisition, use, or disposition of the company’s assets that could have a material effect on the financial statements.

          Because of its inherent limitations, internal control over financial reporting may not prevent or detect misstatements. Also, projections of any evaluation of effectiveness to future periods are subject to the risk that controls may become inadequate because of changes in conditions, or that the degree of compliance with the policies or procedures may deteriorate.

          In our opinion, Enzon Pharmaceuticals, Inc. maintained, in all material respects, effective internal control over financial reporting as of December 31, 2011, based on criteria established in  Internal Control — Integrated Framework  issued by the Committee of Sponsoring Organizations of the Treadway Commission (COSO).

          We also have audited, in accordance with the standards of the Public Company Accounting Oversight Board (United States), the consolidated balance sheets of the Company as of December 31, 2011 and 2010, and the related consolidated statements of operations, stockholders’ equity and cash flows for each of the years in the three-year period ended December 31, 2011, and our report dated March 12, 2012 expressed an unqualified opinion on those consolidated financial statements.

/s/ KPMG LLP

Short Hills, New Jersey
March 12, 2012

58

 	 	
Item 9B.	Other Information	
          None.

PART III.

The information required by Item 10 - Directors, Executive Officers and Corporate Governance; Item 11 - Executive Compensation; Item 12 - Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters, I tem 13 - Certain Relationships and Related Transactions, and Director Independence and I tem 14 - Principal Accountant Fees and Services is incorporated into Part III of this Annual Report on Form 10-K by reference to the Proxy Statement for our 2012 Annual Meeting of Stockholders which Proxy Statement is expected to be filed with the Securities and Exchange Commission not later than 120 days after the close of our fiscal year ended December 31, 2011.

PART IV
 	 	
Item 15.	Exhibits and Financial Statement Schedules	
          (a)(1), (a)(2) and (c). The response to this portion of Item 15 is submitted as a separate section of this report commencing on page F-1.

          (a)(3) and (b). Exhibits (numbered in accordance with Item 601 of Regulation S-K).
 	 	 	 	 	 	
Exhibit
Number	 	Description	 	Reference
No.	

	 	

	 	

	
2.1	 	Asset Purchase Agreement, dated as of November 9, 2009, by and between Klee Pharmaceuticals, Inc., Defiante Farmacêutica, S.A. and Sigma-Tau Finanziaria S.p.A., on the one hand, and Enzon Pharmaceuticals, Inc., on the other hand	 	(32	)	
3.1	 	Amended and Restated Certificate of Incorporation dated May 18, 2006, together with that Certificate of Amendment to the Amended and Restated Certificate of Incorporation dated July 13, 2010	 	(1	)	
3.2	 	Second Amended and Restated By-Laws effective March 11, 2011	 	(35	)	
4.1	 	Rights Agreement dated May 17, 2002 between Enzon, Inc. (now known as Enzon Pharmaceuticals, Inc.) and Continental Stock Transfer & Trust Company, as rights agent	 	(3	)	
4.2	 	First Amendment to the Rights Agreement, dated as of February 19, 2003 between Enzon Pharmaceuticals, Inc. and Continental Stock Transfer & Trust Company, as rights agent	 	(4	)	
4.3	 	Second Amendment to the Rights Agreement dated as of January 7, 2008 between Enzon Pharmaceuticals, Inc. and Continental Stock Transfer and Trust Company, as rights agent.	 	(5	)	
4.4	 	Third Amendment to the Rights Agreement dated as of July 23, 2009 between Enzon Pharmaceuticals, Inc. and Continental Stock Transfer and Trust Company, as rights agent.	 	(6	)	
4.5	 	Indenture, dated May 23, 2006, between Enzon Pharmaceuticals, Inc. and Wilmington Trust Company	 	(7	)	
4.6	 	First Supplemental Indenture, dated August 25, 2008, between Enzon Pharmaceuticals, Inc. and Wilmington Trust Company	 	(8	)	
10.1	 	Lease - 300-C Corporate Court, South Plainfield, New Jersey	 	(9	)	
10.2	 	Lease dated April 1, 1995 regarding 20 Kingsbridge Road, Piscataway, New Jersey	 	(10	)	
10.3	 	First Amendment to Lease regarding 20 Kingsbridge Road, Piscataway, New Jersey, dated as of November 13, 2001	 	(11	)	
10.4	 	Lease 300A-B Corporate Court, South Plainfield, New Jersey	 	(12	)	
10.5	 	Modification of Lease Dated May 14, 2003 – 300- C Corporate Court, South Plainfield, New Jersey	 	(13	)	
59

 	 	 	 	 	 	
10.6	 	Lease – 685 Route 202/206, Bridgewater, New Jersey	 	(14	)	
10.7	 	First Amendment of Lease - 685 Route 202/206, Bridgewater, New Jersey	 	(15	)	
10.8	 	Second Amendment to Lease - 685 Route 202/206, Bridgewater, New Jersey	 	(15	)	
10.9	 	Third Amendment to Lease - 685 Route 202/206, Bridgewater, New Jersey	 	(15	)	
10.10	 	2001 Incentive Stock Plan, as amended and restated, of Enzon Pharmaceuticals, Inc.**	 	(2	)	
10.11	 	Development, License and Supply Agreement between Enzon, Inc. (now known as Enzon Pharmaceuticals, Inc.) and Schering Corporation; dated November 14, 1990, as amended*	 	(16	)	
10.12	 	Executive Deferred Compensation Plan (2008 Restatement)**	 	(17	)	
10.13	 	Amended and Restated Severance Agreement with Paul S. Davit dated May 7, 2004**	 	(18	)	
10.14	 	Amended and Restated Severance Agreement with Ralph del Campo dated May 7, 2004**	 	(18	)	
10.15	 	2007 Outside Director Compensation Plan, as amended**	 	(19	)	
10.16	 	Employment Agreement with Ivan D. Horak, M.D. dated September 2, 2005, along with a form of Stock Option Award Agreement and Restricted Stock Unit Award Agreement between the Company and Dr. Horak executed as of September 2, 2005†**	 	(20	)	
10.17	 	Form of Non-Qualified Stock Option Agreement for Executive Officers under the 2001 Incentive Stock Plan**	 	(21	)	
10.18	 	Form of Restricted Stock Award Agreement for Executive Officers under the 2001 Incentive Stock Plan**	 	(21	)	
10.19	 	Form of Restricted Stock Unit Award Agreement for Executive Officers under the 2001 Incentive Stock Plan**	 	(22	)	
10.20	 	Form of Restricted Stock Unit Award Agreement for Independent Directors under the 2001 Incentive Stock Plan**	 	(20	)	
10.21	 	Form of Stock Option Award Agreement for Independent Directors under the 1987 Non-Qualified Stock Option Plan**	 	(20	)	
10.22	 	Form of Stock Option Award Agreement for Independent Directors under the 2001 Incentive Stock Plan**	 	(20	)	
10.23	 	Amendment to Outstanding Awards Under 2001 Incentive Stock Plan**	 	(30	)	
10.24	 	2001 Incentive Stock Plan Non-Qualified Stock Plan Terms and Conditions**	 	(30	)	
10.25	 	2001 Incentive Stock Plan Restricted Stock Unit Award Terms and Conditions**	 	(30	)	
10.26	 	2001 Incentive Stock Plan Restricted Stock Award Terms and Conditions**	 	(30	)	
10.27	 	2011 Stock Option and Incentive Plan**	 	(36	)	
10.28	 	Form of Non-Qualified Stock Option Agreement for Company Employees under the 2011 Stock Option and Incentive Plan**	 	(36	)	
10.29	 	Form of Non-Qualified Stock Option Agreement for Non-Employee Directors under the 2011 Stock Option and Incentive Plan**	 	(36	)	
10.30	 	Form of Restricted Stock Unit Award Agreement for Company Employees under the 2011 Stock Option and Incentive Plan**	 	(36	)	
10.31	 	Form of Restricted Stock Unit Award Agreement for Non-Employee Directors under the 2011 Stock Option and Incentive Plan**	 	(36	)	
10.32	 	2007 Employee Stock Purchase Plan	 	(24	)	
10.33	 	Offer Letter of Employment, dated May 26, 2011, by and between Enzon Pharmaceuticals, Inc. and Ana I. Stancic**	 	(37	)	
10.34	 	Amended and Restated General Severance Agreement dated as of November 22, 2011, by and between Enzon Pharmaceuticals, Inc. and Ana I. Stancic**	 	(38	)	
10.35	 	Offer Letter of Employment, dated November 23, 2011, by and between Enzon Pharmaceuticals, Inc. and Timothy G. Daly**	 	(39	)	
10.36	 	Purchase Agreement between the Company and Drug Royalty LP1 dated as of August 19, 2007	 	(28	)	
10.37	 	Amendment to Amended and Restated Severance Agreement with Paul S. Davit	 	 	 	
60

 	 	 	 	 	 	
 	 	dated November 6, 2007**	 	(29	)	
10.38	 	Severance Agreement and Release of Claims Paul S. Davit and Enzon Pharmaceuticals, Inc.**	 	(40	)	
10.39	 	Amendment No. 2 to Amended and Restated Severance Agreement with Ralph del Campo dated as of June 18, 2010**	 	(33	)	
10.40	 	License and Collaboration Agreement dated July 26, 2006 by and between Santaris Pharma A/S and Enzon Pharmaceuticals, Inc.***	 	(30	)	
10.41	 	Amendment No.1 to License and Collaboration Agreement, dated June 13, 2007 by and between Santaris Pharma A/S and Enzon Pharmaceuticals, Inc.***	 	(30	)	
10.42	 	Amendment No. 2 to License and Collaboration Agreement, dated June 25, 2007 by and between Santaris Pharma A/S and Enzon Pharmaceuticals, Inc.***	 	(30	)	
10.43	 	Amendment No. 3 to License and Collaboration Agreement, dated December 21, 2007 by and between Santaris Pharma A/S and Enzon Pharmaceuticals, Inc.***	 	(30	)	
10.44	 	Amendment No. 4 to License and Collaboration Agreement, dated July 8, 2009 by and between Santaris Pharma A/S and Enzon Pharmaceuticals, Inc.***	 	(31	)	
10.45	 	Amendment No. 5 to License and Collaboration Agreement, dated October 2, 2009 by and between Santaris Pharma A/S and Enzon Pharmaceuticals, Inc.***	 	(31	)	
10.46	 	Consulting Agreement dated as of October 5, 2005 by and between Mark L. Ogden and Enzon Pharmaceuticals, Inc., together with all amendments thereto**	 	(34	)	
12.1	 	Computation of Ratio of Earnings to Fixed Charges	 	+	 	
21.1	 	Subsidiaries of Registrant	 	+	 	
23.1	 	Consent of Independent Registered Public Accounting Firm	 	+	 	
31.1	 	Certification of Principal Executive Officer pursuant to Section 302 of the Sarbanes-Oxley Act of 2002	 	+	 	
31.2	 	Certification of Principal Financial Officer pursuant to Section 302 of the Sarbanes-Oxley Act of 2002	 	+	 	
32.1	 	Certification of Principal Executive Officer pursuant to Section 906 of the Sarbanes- Oxley Act of 2002	 	+	 	
32.2	 	Certification of Principal Financial Officer pursuant to Section 906 of the Sarbanes-Oxley Act of 2002	 	+	 	
101	 	The following materials from Enzon Pharmaceuticals, Inc.’s Annual Report on Form 10-K for the year ended December 31, 2011, formatted in XBRL (Extensible Business Reporting Language): (i) Consolidated Balance Sheets, (ii) Consolidated Statements of Operations, (iii) Consolidated Statements of Shareholders’ Equity, (iv) Consolidated Statements of Cash Flow, and (v) Notes to Consolidated Financial Statements.	 	+	 	

+	Filed herewith	
Referenced exhibit was previously filed with the Commission as an exhibit to the Company’s filing indicated below and is incorporated herein by reference to that filing:
 	 	
(1)	Quarterly Report on Form 10-Q for the quarter ended June 30, 2010 filed August 9, 2010	
 	 	
(2)	Current Report on Form 8-K filed May 19, 2006	
 	 	
(3)	Registration Statement on Form 8-A12G (File No. 000-12957) filed May 22, 2002	
 	 	
(4)	Registration Statement on Form 8-A12G/A (File No. 000-12957) filed February 20, 2003	
 	 	
(5)	Current Report on Form 8-K filed January 8, 2008	
 	 	
(6)	Registration Statement on Form 8-A/A filed July 24, 2009	
 	 	
(7)	Current Report on Form 8-K filed May 25, 2006	
 	 	
(8)	Current Report on Form 8-K filed August 25, 2008	
 	 	
(9)	Registration Statement on Form S-18 (File No. 2-88240-NY)	
 	 	
(10)	Quarterly Report on Form 10-Q for the quarter ended March 31, 1995 filed May 12, 1995	
61

 	 	
(11)	Transition Report on Form 10-K for the six months ended December 31, 2005.	
 	 	
(12)	Annual Report on Form 10-K for the fiscal year ended June 30, 1993	
 	 	
(13)	Annual Report on Form 10-K for the fiscal year ended June 30, 2003 filed on September 29, 2003	
 	 	
(14)	Quarterly Report on Form 10-Q for the quarter ended March 31, 2002 filed May 15, 2002	
 	 	
(15)	Quarterly Report on Form 10-Q for the quarter ended September 30, 2006 filed November 2, 2006	
 	 	
(16)	Annual Report on Form 10-K for the fiscal year ended June 30, 2002 filed on September 26, 2002	
 	 	
(17)	Quarterly Report on Form 10-Q for the quarter ended September 30, 2007 filed November 1, 2007	
 	 	
(18)	Annual Report on Form 10-K for the fiscal year ended June 30, 2005 filed September 29, 2005	
 	 	
(19)	Quarterly Report on Form 10-Q for the quarter ended June 30, 2007 filed August 2, 2007	
 	 	
(20)	Quarterly Report on Form 10-Q for the quarter ended September 30, 2005 filed November 9, 2005	
 	 	
(21)	Quarterly Report on Form 10-Q for the quarter ended December 31, 2004 filed February 9, 2005	
 	 	
(22)	Quarterly Report on Form 10-Q for the quarter ended March 31, 2005 filed May 10, 2005	
 	 	
(23)	Current Report on Form 8-K filed June 20, 2008	
 	 	
(24)	Registration Statement on Form S-8 (File No. 333-140282) filed January 29, 2007	
 	 	
(25)	Quarterly Report on Form 10-Q for the quarter ended March 31, 2007 filed May 4, 2007	
 	 	
(26)	Annual Report on Form 10-K for the year ended December 31, 2007 filed February 29, 2008	
 	 	
(27)	Quarterly Report on Form 10-Q for the quarter ended June 30, 2009 filed August 5, 2009	
 	 	
(28)	Current Report on Form 8-K filed August 20, 2007	
 	 	
(29)	Current Report on Form 8-K filed November 13, 2007	
 	 	
(30)	Annual Report on Form 10-K for the year ended December 31, 2008 filed March 9, 2009	
 	 	
(31)	Quarterly Report on Form 10-Q for the quarter ended September 30, 2009 filed November 3, 2009	
 	 	
(32)	Current Report on Form 8-K filed November 12, 2009	
 	 	
(33)	Current Report on Form 8-K filed June 17, 2010	
 	 	
(34)	Quarterly Report on Form 10-Q for the quarter ended September 30, 2010 filed November 4, 2010	
 	 	
(35)	Current Report on Form 8-K filed March 17, 2011	
 	 	
(36)	Registration Statement on Form S-8 (File No. 333-174099) filed May 10, 2011	
 	 	
(37)	Current Report on Form 8-K filed May 31, 2011	
62

 	 	
(38)	Current Report on Form 8-K filed November 23, 2011	
 	 	
(39)	Current Report on Form 8-K filed November 30, 2011	
 	 	
(40)	Quarterly Report on Form 10-Q for the quarter ended June 30, 2011 filed August 5, 2011	
 	 	
†	Portions of this exhibit have been redacted and filed separately with the Commission pursuant to a confidential treatment request.	
 	 	
**	Management contracts or compensatory plans and arrangements required to be filed pursuant to Item 601(b)(10)(ii)(A) or (iii) of Regulation S-K.	
 	 	
***	The Company has requested confidential treatment of the redacted portions of this exhibit pursuant to Rule 24b-2 under the Securities Exchange Act of 1934, as amended, and has separately filed a complete copy of this exhibit with the Securities and Exchange Commission.	
63

SIGNATURES

          Pursuant to the requirements of section 13 or 15(d) of the Securities Exchange Act of 1934, the registrant has duly caused this report to be signed on its behalf by the undersigned, thereunto duly authorized.
 	 	 	
 	ENZON PHARMACEUTICALS, INC.	
 	                       (Registrant)	
 	 	
Dated: March 12, 2012	/s/Ana I. Stancic	 	

	 	
 	Ana I. Stancic	
 	Principal Executive Officer,	
 	Executive Vice President,	
 	Chief Operating Officer and	
 	Chief Financial Officer	
 	 	
Dated: March 12, 2012	/s/Timothy G. Daly	 	

	 	
 	Timothy G. Daly	
 	Vice President, Controller and	
 	Chief Accounting Officer	
 	(Principal Financial Officer and	
 	Principal Accounting Officer)	
64

          Pursuant to the requirements of the Securities Exchange Act of 1934, this Report has been signed below by the following persons on behalf of the Registrant and in the capacities and on the dates indicated:
 	 	 	 	 	 	
Name	 	Title	 	Date	 	

	 	

	 	

	 	
/s/Ana I. Stancic	 	Principal Executive Officer, Executive Vice President,
Chief Operating Officer and Chief Financial Officer	 	March 12, 2012	 	

	 	 	 	 	 	 	
Ana I. Stancic	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	
/s/Timothy G. Daly	 	Vice President, Controller and Chief Accounting Officer
(Principal Financial Officer and Principal Accounting Officer)	 	March 12, 2012	 	 	 	

	 	 	 	 	 	 	 	 	
Timothy G. Daly	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/Alexander J. Denner	 	Chairman of the Board	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
Alexander J. Denner	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/Thomas F. Deuel	 	Director	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
Thomas F. Deuel	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/Robert LeBuhn	 	Director	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
Robert LeBuhn	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/Richard C. Mulligan	 	Vice Chairman of the Board	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
Richard C. Mulligan	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/Robert C. Salisbury	 	Director	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
Robert C. Salisbury	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/Richard A. Young	 	Director	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
Richard A. Young	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	
/s/George W. Hebard III	 	Director	 	March 12, 2012	 	 	 	 	

	 	 	 	 	 	 	 	 	
George W. Hebard III	 	 	 	 	 	 	 	 	
65

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES

Index
 	 	 	
 	 	Page	

	
 	 	 	
Report of Independent Registered Public Accounting Firm	 	F-2	
Consolidated Financial Statements:	 	 	
Consolidated Balance Sheets - December 31, 2011 and 2010	 	F-3	
Consolidated Statements of Operations - Years ended December 31, 2011, 2010 and 2009	 	F-4	
Consolidated Statements of Stockholders’ Equity - Years ended December 31, 2011, 2010 and 2009	 	F-5	
Consolidated Statements of Cash Flows - Years ended December 31, 2011, 2010 and 2009	 	F-6	
Notes to Consolidated Financial Statements	 	F-7	
F-1

Report of Independent Registered Public Accounting Firm

The Board of Directors and Stockholders
Enzon Pharmaceuticals, Inc.:

We have audited the accompanying consolidated balance sheets of Enzon Pharmaceuticals, Inc. and subsidiaries (the Company) as of December 31, 2011 and 2010, and the related consolidated statements of operations, stockholders’ equity and cash flows for each of the years in the three-year period ended December 31, 2011. These consolidated financial statements are the responsibility of the Company’s management. Our responsibility is to express an opinion on these consolidated financial statements based on our audits.

We conducted our audits in accordance with the standards of the Public Company Accounting Oversight Board (United States). Those standards require that we plan and perform the audit to obtain reasonable assurance about whether the financial statements are free of material misstatement. An audit includes examining, on a test basis, evidence supporting the amounts and disclosures in the financial statements. An audit also includes assessing the accounting principles used and significant estimates made by management, as well as evaluating the overall financial statement presentation. We believe that our audits provide a reasonable basis for our opinion.

In our opinion, the consolidated financial statements referred to above present fairly, in all material respects, the financial position of Enzon Pharmaceuticals, Inc. and subsidiaries as of December 31, 2011 and 2010, and the results of their operations and their cash flows for each of the years in the three-year period ended December 31, 2011, in conformity with U.S. generally accepted accounting principles.

We also have audited, in accordance with the standards of the Public Company Accounting Oversight Board (United States), Enzon Pharmaceuticals Inc.’s internal control over financial reporting as of December 31, 2011, based on criteria established in  Internal Control — Integrated Framework  issued by the Committee of Sponsoring Organizations of the Treadway Commission (COSO), and our report dated March 12, 2012 expressed an unqualified opinion on the effectiveness of the Company’s internal control over financial reporting.

/s/ KPMG LLP

Short Hills, New Jersey
March 12, 2012

F-2

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
CONSOLIDATED BALANCE SHEETS
(In thousands, except share and per share amounts)
 	 	 	 	 	 	 	 	
 	 	December 31,
2011	 	December 31,
2010	 	

	 	

	 	
ASSETS	 	 	 	 	 	 	 	
Current assets:	 	 	 	 	 	 	 	
Cash and cash equivalents	 	$	104,324	 	$	397,530	 	
Marketable securities	 	 	58,188	 	 	31,170	 	
Other current assets	 	 	2,749	 	 	5,916	 	

	

	 	

	

	 	
Total current assets	 	 	165,261	 	 	434,616	 	
 	 	 	 	 	 	 	 	
Property and equipment, net	 	 	16,802	 	 	21,574	 	
Marketable securities	 	 	160,779	 	 	31,394	 	
Other assets	 	 	367	 	 	1,273	 	

	

	 	

	

	 	
Total assets	 	$	343,209	 	$	488,857	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	
LIABILITIES AND STOCKHOLDERS’ EQUITY	 	 	 	 	 	 	 	
Current liabilities:	 	 	 	 	 	 	 	
Accounts payable	 	$	1,572	 	$	4,192	 	
Accrued expenses and other	 	 	13,692	 	 	14,195	 	

	

	 	

	

	 	
Total current liabilities	 	 	15,264	 	 	18,387	 	
 	 	 	 	 	 	 	 	
Notes payable	 	 	129,499	 	 	134,499	 	
Other liabilities	 	 	1,265	 	 	4,114	 	

	

	 	

	

	 	
Total liabilities	 	 	146,028	 	 	157,000	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	
Commitments and contingencies	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	
Stockholders’ equity:	 	 	 	 	 	 	 	
Preferred stock - $.01 par value, authorized 3,000,000 shares; no shares issued and outstanding at December 31, 2011 and 2010	 	 	—	 	 	—	 	
Common stock - $.01 par value, authorized 170,000,000 shares; issued and outstanding 48,292,702 shares and 58,817,561 shares at December 31, 2011 and 2010, respectively	 	 	483	 	 	588	 	
Additional paid-in capital	 	 	341,760	 	 	454,657	 	
Accumulated other comprehensive income	 	 	3	 	 	914	 	
Accumulated deficit	 	 	(145,065	)	 	(124,302	)	

	

	 	

	

	 	
Total stockholders’ equity	 	 	197,181	 	 	331,857	 	

	

	 	

	

	 	
Total liabilities and stockholders’ equity	 	$	343,209	 	$	488,857	 	

	

	 	

	

	 	
The accompanying notes are an integral part of these consolidated financial statements.

F-3

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
CONSOLIDATED STATEMENTS OF OPERATIONS
(In thousands, except per share amounts)
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
Revenues:	 	 	 	 	 	 	 	 	 	 	
Royalties	 	$	40,923	 	$	44,940	 	$	51,408	 	
Sale of in-process research and development	 	 	5,000	 	 	40,900	 	 	—	 	
Contract research and development	 	 	1,431	 	 	9,273	 	 	—	 	
Miscellaneous income	 	 	718	 	 	2,752	 	 	—	 	

	

	 	

	

	 	

	

	 	
Total revenues	 	 	48,072	 	 	97,865	 	 	51,408	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Operating expenses:	 	 	 	 	 	 	 	 	 	 	
Research and development – pipeline	 	 	40,180	 	 	49,883	 	 	45,639	 	
Research and development – specialty and contracted services	 	 	926	 	 	7,135	 	 	24,587	 	
General and administrative	 	 	17,281	 	 	25,439	 	 	37,582	 	
General and administrative – contracted services	 	 	115	 	 	1,957	 	 	—	 	
Restructuring charges	 	 	6,025	 	 	14,026	 	 	693	 	

	

	 	

	

	 	

	

	 	
Total operating expenses	 	 	64,527	 	 	98,440	 	 	108,501	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Operating loss	 	 	(16,455	)	 	(575	)	 	(57,093	)	
 	 	 	 	 	 	 	 	 	 	 	
Other income (expense):	 	 	 	 	 	 	 	 	 	 	
Investment income, net	 	 	1,735	 	 	3,465	 	 	4,312	 	
Interest expense	 	 	(5,929	)	 	(6,315	)	 	(11,514	)	
Other-than-temporary impairment loss	 	 	—	 	 	(896	)	 	—	 	
Other, net	 	 	91	 	 	1,184	 	 	5,008	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Loss from continuing operations before income tax expense (benefit)	 	 	(20,558	)	 	(3,137	)	 	(59,287	)	
 	 	 	 	 	 	 	 	 	 	 	
Income tax expense (benefit)	 	 	205	 	 	(337	)	 	(2,085	)	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Loss from continuing operations	 	 	(20,763	)	 	(2,800	)	 	(57,202	)	
Income and gain from discontinued operations, net of income tax	 	 	—	 	 	180,043	 	 	57,885	 	

	

	 	

	

	 	

	

	 	
Net (loss) income	 	$	(20,763	)	$	177,243	 	$	683	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Loss per common share - continuing operations
Basic and Diluted	 	$	(0.40	)	$	(0.05	)	$	(1.26	)	

	

	 	

	

	 	

	

	 	
Earnings per common share – discontinued operations
Basic and Diluted	 	$	—	 	$	3.08	 	$	1.28	 	

	

	 	

	

	 	

	

	 	
(Loss) earnings per common share – net (loss) income
Basic and Diluted	 	$	(0.40	)	$	3.03	 	$	0.02	 	

	

	 	

	

	 	

	

	 	
Weighted average shares – basic and diluted	 	 	51,910	 	 	58,466	 	 	45,186	 	

	

	 	

	

	 	

	

	 	
The accompanying notes are an integral part of these consolidated financial statements.

F-4

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
CONSOLIDATED STATEMENTS OF STOCKHOLDERS’ EQUITY
(In thousands)
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	Accumulated
Other
Comprehensive
Income (Loss)	 	 	 	 	 	 	
 	 	Common Stock	 	Additional
Paid-in
Capital	 	 	 	 	 	 	 	 	 	 	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Number of
Shares	 	Par
Value	 	 	 	 	 	Accumulated
Deficit	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	 	 	 	Total	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	 	

	 	

	 	

	 	

	 	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Balance, December 31, 2008	 	 	45,032	 	$	450	 	$	345,088	 	$	(1,649	)	$	(302,228	)	$	41,661	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net income	 	 	—	 	 	—	 	 	—	 	 	—	 	 	683	 	 	683	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Other comprehensive income:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net unrealized gain on available-for-sale securities, net of tax	 	 	—	 	 	—	 	 	—	 	 	3,247	 	 	—	 	 	3,247	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Currency translation adjustment	 	 	—	 	 	—	 	 	—	 	 	730	 	 	—	 	 	730	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Total comprehensive income	 	 	—	 	 	—	 	 	—	 	 	—	 	 	—	 	 	4,660	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Exercises of stock options	 	 	9	 	 	—	 	 	56	 	 	—	 	 	—	 	 	56	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Stock-based compensation	 	 	357	 	 	4	 	 	8,122	 	 	—	 	 	—	 	 	8,126	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Issuance of stock for employee stock purchase plan	 	 	113	 	 	1	 	 	794	 	 	—	 	 	—	 	 	795	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Repurchases of common stock	 	 	(193	)	 	(2	)	 	(2,013	)	 	—	 	 	—	 	 	(2,015	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Balance, December 31, 2009	 	 	45,318	 	$	453	 	$	352,047	 	$	2,328	 	$	(301,545	)	$	53,283	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net income	 	 	—	 	 	—	 	 	—	 	 	—	 	 	177,243	 	 	177,243	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Other comprehensive income:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net unrealized loss on available-for-sale securities, net of tax	 	 	—	 	 	—	 	 	—	 	 	(672	)	 	—	 	 	(672	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Currency translation adjustment	 	 	—	 	 	—	 	 	—	 	 	(742	)	 	—	 	 	(742	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Total comprehensive income	 	 	—	 	 	—	 	 	—	 	 	—	 	 	—	 	 	175,829	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Conversion of notes payable	 	 	13,466	 	 	134	 	 	114,617	 	 	—	 	 	—	 	 	114,751	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Exercises of stock options	 	 	4,147	 	 	41	 	 	31,710	 	 	—	 	 	—	 	 	31,751	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Stock-based compensation	 	 	376	 	 	4	 	 	3,900	 	 	—	 	 	—	 	 	3,904	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Issuance of stock for employee stock purchase plan	 	 	52	 	 	1	 	 	508	 	 	—	 	 	—	 	 	509	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Repurchases of common stock	 	 	(4,541	)	 	(45	)	 	(48,125	)	 	—	 	 	—	 	 	(48,170	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Balance, December 31, 2010	 	 	58,818	 	$	588	 	$	454,657	 	$	914	 	$	(124,302	)	$	331,857	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net loss	 	 	—	 	 	—	 	 	—	 	 	—	 	 	(20,763	)	 	(20,763	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Other comprehensive loss:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net unrealized loss on available-for-sale securities, net of tax	 	 	—	 	 	—	 	 	—	 	 	(911	)	 	—	 	 	(911	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Total comprehensive loss	 	 	—	 	 	—	 	 	—	 	 	—	 	 	—	 	 	(21,674	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Exercises of stock options	 	 	674	 	 	7	 	 	5,446	 	 	—	 	 	—	 	 	5,453	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Stock-based compensation	 	 	191	 	 	2	 	 	1,916	 	 	—	 	 	—	 	 	1,918	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Issuance of stock for employee stock purchase plan	 	 	41	 	 	—	 	 	420	 	 	—	 	 	—	 	 	420	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Repurchases of common stock	 	 	(11,431	)	 	(114	)	 	(120,679	)	 	—	 	 	—	 	 	(120,793	)	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Balance, December 31, 2011	 	 	48,293	 	$	483	 	$	341,760	 	$	3	 	$	(145,065	)	$	197,181	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
The accompanying notes are an integral part of these consolidated financial statements.

F-5

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
CONSOLIDATED STATEMENTS OF CASH FLOWS
(In thousands)
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
Cash flows from operating activities:	 	 	 	 	 	 	 	 	 	 	
Net (loss) income	 	$	(20,763	)	$	177,243	 	$	683	 	
Income and gain from discontinued operations	 	 	—	 	 	180,043	 	 	57,885	 	

	

	 	

	

	 	

	

	 	
Loss from continuing operations	 	 	(20,763	)	 	(2,800	)	 	(57,202	)	
Adjustments to reconcile loss from continuing operations to net cash (used in) provided by operating activities:	 	 	 	 	 	 	 	 	 	 	
Depreciation	 	 	5,336	 	 	5,811	 	 	6,915	 	
Amortization and write-off of debt issuance costs	 	 	567	 	 	576	 	 	1,364	 	
Stock-based compensation and employee stock purchase plan	 	 	3,139	 	 	6,869	 	 	7,861	 	
(Gain) loss on sale of marketable securities	 	 	(240	)	 	(589	)	 	11	 	
Other	 	 	1,600	 	 	2,590	 	 	(1,086	)	
Write-down and sale of property and equipment	 	 	—	 	 	1,082	 	 	232	 	
Other-than-temporary impairment loss on investment	 	 	—	 	 	896	 	 	—	 	
Gain on redemption of notes payable	 	 	—	 	 	—	 	 	(4,848	)	
Changes in operating assets and liabilities:	 	 	 	 	 	 	 	 	 	 	
Decrease (increase) in other assets	 	 	3,506	 	 	644	 	 	(2,785	)	
(Decrease) increase in accounts payable	 	 	(2,620	)	 	2,801	 	 	(361	)	
(Decrease) increase in accrued expenses and other liabilities	 	 	(3,250	)	 	4,299	 	 	(1,709	)	

	

	 	

	

	 	

	

	 	
Net cash (used in) provided by operating activities of continuing operations	 	 	(12,725	)	 	22,179	 	 	(51,608	)	
Net cash provided by operating activities of discontinued operations	 	 	—	 	 	436	 	 	66,605	 	

	

	 	

	

	 	

	

	 	
Net cash (used in) provided by operating activities	 	 	(12,725	)	 	22,615	 	 	14,997	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Cash flows from investing activities:	 	 	 	 	 	 	 	 	 	 	
Purchases of property and equipment	 	 	(630	)	 	(1,967	)	 	(1,987	)	
Proceeds from sale of fixed assets	 	 	4	 	 	—	 	 	—	 	
Purchases of marketable securities	 	 	(263,061	)	 	(2,834	)	 	(109,791	)	
Proceeds from sales and maturities of marketable securities	 	 	104,448	 	 	86,306	 	 	91,958	 	
Proceeds from sale of business, net	 	 	—	 	 	262,581	 	 	—	 	

	

	 	

	

	 	

	

	 	
Net cash (used in) provided by investing activities of continuing operations	 	 	(159,239	)	 	344,086	 	 	(19,820	)	
Net cash used in investing activities of discontinued operations	 	 	—	 	 	(105	)	 	(6,327	)	

	

	 	

	

	 	

	

	 	
Net cash (used in) provided by investing activities	 	 	(159,239	)	 	343,981	 	 	(26,147	)	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Cash flows from financing activities:	 	 	 	 	 	 	 	 	 	 	
Repurchases of common stock	 	 	(120,793	)	 	(48,170	)	 	(2,015	)	
Retirement of notes payable	 	 	(5,000	)	 	—	 	 	(15,602	)	
Proceeds from issuance of common stock	 	 	5,873	 	 	32,260	 	 	852	 	
Withholding taxes – stock-based compensation	 	 	(1,155	)	 	(3,443	)	 	(1,107	)	
Redemptions from employee stock purchase plan, net	 	 	(167	)	 	(153	)	 	(249	)	

	

	 	

	

	 	

	

	 	
Net cash used in financing activities	 	 	(121,242	)	 	(19,506	)	 	(18,121	)	

	

	 	

	

	 	

	

	 	
Net (decrease) increase in cash and cash equivalents	 	 	(293,206	)	 	347,090	 	 	(29,271	)	
Cash and cash equivalents at beginning of year	 	 	397,530	 	 	50,440	 	 	79,711	 	

	

	 	

	

	 	

	

	 	
Cash and cash equivalents at end of year	 	$	104,324	 	$	397,530	 	$	50,440	 	

	

	 	

	

	 	

	

	 	
The accompanying notes are an integral part of these consolidated financial statements.

F-6

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS

(1) Description of Business

          On January 29, 2010, Enzon Pharmaceuticals, Inc. and subsidiaries (Enzon or the Company) consummated the sale of its specialty pharmaceutical business, comprised principally of the Company’s products and contract manufacturing segments. These divested components are reflected in these consolidated financial statements as discontinued operations and historical information related to the divested components has been reclassified accordingly. As part of this transaction, the Company also divested an in-process research and development asset of the specialty pharmaceutical business and reported the proceeds in revenue from continuing operations. Subsequent to the sale of the specialty pharmaceutical business, the Company committed to performing certain research and development and general and administrative services to facilitate transition (see Note 22, Discontinued Operations).

          Following the sale of the specialty pharmaceutical business, Enzon is a biotechnology company dedicated to the research and development of innovative therapeutics for cancer patients with high unmet medical needs. The Company incurred workforce and facilities-related restructuring charges during 2011, 2010 and 2009 which reflected the transition from a fully integrated biopharmaceutical company with research, manufacturing and marketing operations to a biotechnology company dedicated to oncology research and development (see Note 13, Restructurings).

          Operations are funded in part by the receipt of royalty revenues from licensing arrangements with other companies related to sales of products developed using the Company’s proprietary Customized PEGylation Linker Technology (Customized Linker Technology®) – primarily PEGINTRON, marketed by Merck & Co., Inc. The Company operates in one business segment. The Company’s Principal Executive Officer (chief operating decision maker) reviews the Company’s operating results on an aggregate basis and manages the Company’s operations as a single operating unit. As of December 31, 2011, the Company’s operations and assets resided exclusively in the United States.

          The Company’s pipeline drug development programs utilize two platforms – Customized Linker Technology and third-generation messenger ribonucleic acid (mRNA)-targeting agents utilizing the Locked Nucleic Acid (LNA) technology. The Company currently has four compounds in clinical development: PEG-SN38 and the mRNA antagonists targeting Hypoxia-Inducible Factor-1α (HIF-1α), Survivin and Androgen Receptor (AR). In addition, the Company has other novel LNA targets in various stages of preclinical research.

          The Company’s continuing business is subject to significant risks and uncertainties including, but not limited to:
The risk that the Company will not achieve success in its research and development efforts, including clinical trials conducted by either the Company or its collaborative partners.
The risk that the Company will experience operating losses for the next several years.
The risk that there will be a decline in sales of products sold by others from which the Company derives royalty revenues.
Decisions by regulatory authorities regarding whether and when to approve the Company’s regulatory applications.
The risk that the Company will fail to obtain adequate financing to meet its future capital and financing needs.
The risk that key personnel will leave the Company.

F-7

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(2) Summary of Significant Accounting Policies

Principles of Consolidation

          The consolidated financial statements include the accounts of the Company and its wholly owned subsidiaries. All intercompany balances and transactions have been eliminated as part of the consolidation. Prior to the sale of the specialty pharmaceutical business, assets and liabilities of the Company’s Canadian subsidiary were translated into U.S. dollar equivalents at rates in effect at the balance sheet date. Currency translation adjustments were recorded in stockholders’ equity in accumulated other comprehensive income (loss). Subsequent to the sale, the net assets (primarily cash) of the subsidiary were converted into U.S. dollars at current rates with fluctuations recognized in earnings.

Use of Estimates

          The preparation of consolidated financial statements in conformity with accounting principles generally accepted in the U.S. requires management to make estimates and assumptions that affect reported amounts of assets and liabilities, disclosures of contingent assets and liabilities at the date of the financial statements, and the reported amounts of revenues and expenses during the reporting period. These estimates include the valuation of investments, legal and contractual contingencies, stock-based compensation, and income taxes. Although management bases its estimates on historical experience and various other assumptions that are believed to be reasonable under the circumstances, actual results could differ from these estimates.

Financial Instruments and Fair Value

          The carrying values of cash, cash equivalents, other current assets, accounts payable and accrued expenses in the Company’s consolidated balance sheets approximated their fair values at December 31, 2011 and 2010 due to their short-term nature. Marketable securities are carried on the consolidated balance sheets at fair value. Fair values and carrying amounts of the Company’s financial instruments at December 31, 2011 are indicated below (in thousands):
 	 	 	 	 	 	 	 	 	
Description	 	 	Fair Value	 	Carrying
Amount	 	

	 	 	

	 	

	 	
Marketable securities (Note 4)	 	$	218,967	 	$	218,967	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	
4% Convertible Notes Payable (Note 6)	 	$	129,825	 	$	129,499	 	

	

	 	

	

	 	
Cash Equivalents

          The Company considers all highly liquid debt instruments purchased with remaining maturities of three months or less to be cash equivalents. As of December 31, 2011 and 2010, the Company held $98.1 million and $386.2 million of cash equivalents, respectively.

Marketable Securities

          The Company classifies its investments in debt and equity securities as either short-term or long-term based upon their stated maturities and the Company’s ability and intent to hold them. Debt securities with stated maturities of one year or less are classified as current assets. Debt securities with stated maturities greater than one year are classified as noncurrent assets when the Company has the ability and intent to hold them for at least one year. Investments in debt securities are classified as available-for-sale. Unrealized gains and losses (which are deemed to be temporary), net of related tax effect when appropriate, are included in the determination of other comprehensive income (loss) and reported in stockholders’ equity. The cost of debt securities is adjusted for amortization of premiums and accretion of discounts to maturity. The amortization and accretion, along with realized gains and losses, are included in investment income, net. The cost of securities is based on the specific identification method.

F-8

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Notes Payable

          The carrying value of the Company’s 4% convertible senior unsecured notes outstanding at December 31, 2011 and 2010 was $129.5 million and $134.5 million, respectively, and the fair value of these notes was $129.8 million and $182.4 million at December 31, 2011 and 2010, respectively. Fair value of the Company’s notes payable is based on quoted market prices.

Property and Equipment

          Property and equipment are stated at cost. Depreciation of fixed assets is provided by the straight-line method over the estimated useful lives of the assets. When assets are retired or otherwise disposed of, the cost and related accumulated depreciation are removed from the accounts, and any resulting gain or loss is recognized in operations for the period. Amortization of leasehold improvements is calculated using the straight-line method over the remaining term of the lease or the life of the asset, whichever is shorter. The costs of repairs and maintenance are charged to operations as incurred while significant improvements are capitalized.

Deferred Debt Issuance Costs

          Costs incurred in issuing the Company’s notes payable have been recorded as deferred debt issuance costs and are included within the balances of other assets and other current assets in the accompanying consolidated balance sheets. Such amounts are being amortized using the straight-line method, which approximates the effective interest method, over the terms of the related financing. The amortization of deferred debt issuance costs is included in interest expense in the accompanying consolidated statements of operations. At the time of repurchase or other extinguishment of notes, a pro rata amount of deferred debt issuance costs is written off to interest expense. Upon conversion of notes, a pro rata amount of deferred issuance costs is written off against additional paid-in capital.

Revenue Recognition

          Royalty revenue from the Company’s agreements with third parties is recognized when the Company can reasonably determine the amounts earned. In most cases, this will be upon notification from the third-party licensee, which is typically during the quarter following the quarter in which the sales occurred. The Company does not participate in the selling or marketing of products for which it receives royalties. No provision for uncollectible accounts is established upon recognition of revenues.

          Contingent payments due under the asset purchase agreement for the sale of the specialty pharmaceutical business are recognized as income when the milestone has been achieved and collection is assured. Such payments are non-refundable and no further effort is required on the part of the Company or the other party to complete the earning process.

          The Company does not routinely participate in research and licensing arrangements that have multiple deliverables. The sale of the specialty pharmaceutical business, however, did involve the application of the guidance regarding multiple deliverables in separating the revenues associated with the sale of in-process research and development from the other elements of the transaction, principally the assets sold as part of discontinued operations and the continuing involvement of the Company in contract research activities. The Company determined that the in-process research and development had value to the buyer of the specialty pharmaceutical business on a stand-alone basis and that there was objective and reliable evidence available to support the allocation of the total purchase price to the respective units of accounting (see Note 22, Discontinued Operations).

F-9

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Research and Development Expenses

          All research and development costs are expensed as incurred. These include the following types of costs incurred in performing research and development activities: clinical trials, clinical manufacturing costs, contract services, salaries, share-based compensation and benefits and administrative support costs. Non-refundable advance payments to acquire goods or pay for services that will be consumed or performed in future periods are capitalized and amortized over the period of expected benefit. Costs to acquire in-process research and development projects and technologies that have no alternative future use at the date of acquisition are expensed as incurred.

          Substantial portions of the Company’s preclinical and clinical trial work are performed by third-party contract research organizations (CROs) and other vendors. The Company accrues expenses for costs for work performed by CROs based upon the estimated amount of the total effort completed on each study or project using factors such as the number of patients enrolled, the number of active clinical sites and the duration for which the patients will be enrolled in the study. Similar approaches are taken in estimating the percentage of completion in relation to contracts with contract manufacturing organizations. The Company bases the estimates on the information available at the time and records actual expenses as work is completed and invoiced.

Income Taxes

          Income taxes are accounted for under the asset and liability method. Deferred tax assets and liabilities are recognized for the estimated future tax consequences attributable to differences between the financial statement carrying amounts of existing assets and liabilities and their respective tax bases and operating loss and tax credit carryforwards. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the years in which those temporary differences are expected to be realized. The effect of a change in tax rates or laws on deferred tax assets and liabilities is recognized in operations in the period that includes the enactment date of the rate change. A valuation allowance is established to reduce the deferred tax assets to the amounts that are more likely than not to be realized from operations.

          Tax benefits of uncertain tax positions are recognized only if it is more likely than not that the Company will be able to sustain a position taken on an income tax return. The Company has no liability for uncertain positions. Interest and penalties, if any, related to unrecognized tax benefits, would be recognized as income tax expense.

Concentrations of Risk

          The Company’s holdings of financial instruments are comprised principally of money market funds and debt securities. The Company does not invest in portfolio equity securities or commodities or use financial derivatives for trading purposes. The Company seeks reasonable assuredness of the safety of principal and market liquidity by investing in rated securities while at the same time seeking to achieve a reasonable rate of return. The Company’s market risk exposure consists principally of exposure to changes in interest rates. The Company’s holdings of debt securities also are exposed to the risks of changes in the credit quality of issuers. The Company typically invests the majority of its investments in the shorter-end of the maturity spectrum. At December 31, 2011 the portfolio had a weighted average effective maturity of just over a year and contained securities readily tradable in a market that enables flexibility in terms of timing of disposal. Cash equivalents are primarily held in a number of triple-A rated institutional money market funds as well as several corporate and U.S. government-sponsored entities’ debt securities.

F-10

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Stock-Based Compensation Plans

          The Company recognizes the cost of all share-based payment transactions at fair value. Compensation cost, measured by the fair value of the equity instruments issued, adjusted for estimated forfeitures, is recognized in the financial statements as the respective awards are earned.

          The impact that share-based payment awards will have on the Company’s results of operations is a function of the number of shares awarded, the trading price of our stock at date of grant or modification and vesting, including the likelihood of achieving performance goals. Furthermore, the application of the Black-Scholes valuation model employs weighted average assumptions for expected volatility of the Company’s stock, expected term until exercise of the options, the risk free interest rate, and dividends, if any to determine fair value. Expected volatility is based on historical volatility of the Company’s common stock; the expected term until exercise represents the weighted average period of time that options granted are expected to be outstanding giving consideration to vesting schedules and the Company’s historical exercise patterns; and the risk-free interest rate is based on the U.S. Treasury yield curve in effect at the time of grant for periods corresponding with the expected life of the option.

Cash Flow Information

          Cash payments for interest on the Company’s 4% notes were approximately $5.4 million, $5.4 million, and $10.2 million for the years ended December 31, 2011, 2010 and 2009, respectively. There were $0.2 million, $0.1 million, and $0.2 million of income tax payments made for the years ended December 31, 2011, 2010 and 2009, respectively.

          During the year ended December 31, 2010, the Company had a noncash conversion of $115.6 million principal amount of the 4% notes into approximately 13.5 million shares of its common stock.

(3) New Accounting Pronouncements

          In June 2011, the Financial Accounting Standards Board (FASB) issued Accounting Standards Update (ASU) 2011-05, Comprehensive Income (Topic 220).  Under the amendments of ASU 2011-05, an entity is required to present the total of comprehensive income, the components of net income, and the components of other comprehensive income either in a single continuous statement of comprehensive income, or in two separate but consecutive statements. ASU 2011-05 eliminates the option to present components of other comprehensive income as part of the statement of changes in stockholders’ equity. In December 2011, the FASB issued ASU 2011-12,  Comprehensive Income (Topic 220) - Deferral of the Effective Date for Amendments to the Presentation of Reclassifications of Items Out of Accumulated Other Comprehensive Income in ASU 2011-05,  which defers the effective date of the requirement to present line items on the income statement for reclassification of items out of accumulated other comprehensive income until the FASB is able to reconsider that requirement. ASU 2011-05, as amended by ASU 2011-12, will become effective for the Company’s 2012 annual financial statements and for interim and annual financial statements thereafter. Other than the change in financial statement presentation, the adoption of ASU 2011-05, as amended by ASU 2011-12, is not expected to have a material effect on the Company’s consolidated financial statements.

          In May 2011, the FASB issued ASU No. 2011-04, Fair Value Measurement (Topic 820) - Amendments to Achieve Common Fair Value Measurement and Disclosure Requirements in U.S. GAAP and IFRS , to clarify existing guidance and change wording to align U.S. GAAP with IFRS 13. The new standards do not extend the use of fair value, but rather provide guidance on how fair value should be applied where it is already required or permitted. A public entity is required to apply the ASU prospectively for interim and annual periods beginning after December 15, 2011, and early adoption is not permitted. In the period of adoption, the Company will be required to disclose any changes in valuation technique and related inputs that result from applying the ASU and to quantify the total effect, if practicable. The Company does not expect the adoption of the new guidance to have any effect on the consolidated financial statements.

F-11

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(4) Marketable Securities

          The amortized cost, gross unrealized holding gains or losses, and fair value of the Company’s marketable securities by major security type at December 31, 2011 were as follows (in thousands):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Amortized
Cost	 	Gross
Unrealized
Holding Gains	 	Gross
Unrealized
Holding Losses	 	Fair
Value*	 	

	 	

	 	

	 	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Corporate bonds	 	$	130,201	 	$	175	 	$	(168	)	$	130,208	 	
Commercial paper	 	 	30,979	 	 	5	 	 	(3	)	 	30,981	 	
U.S. government agency	 	 	26,531	 	 	30	 	 	(19	)	 	26,542	 	
Variable rate demand notes	 	 	19,295	 	 	—	 	 	—	 	 	19,295	 	
Municipal bonds	 	 	5,000	 	 	—	 	 	—	 	 	5,000	 	
Non-U.S. government bonds	 	 	2,411	 	 	2	 	 	—	 	 	2,413	 	
Certificates of deposit	 	 	2,000	 	 	—	 	 	—	 	 	2,000	 	
Other	 	 	2,550	 	 	—	 	 	(22	)	 	2,528	 	

	

	 	

	

	 	

	

	 	

	

	 	
 	 	$	218,967	 	$	212	 	$	(212	)	$	218,967	 	

	

	 	

	

	 	

	

	 	

	

	 	

 	* Included in current marketable securities of $58,188 and long-term marketable securities of $160,779 at December 31, 2011.	
          The amortized cost, gross unrealized holding gains or losses, and fair value of the Company’s marketable securities by major security type at December 31, 2010 were as follows (in thousands):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Amortized
Cost	 	Gross
Unrealized
Holding Gains	 	Gross
Unrealized
Holding Losses	 	Fair
Value*	 	

	 	

	 	

	 	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Corporate bonds	 	$	52,079	 	$	738	 	$	—	 	$	52,817	 	
U.S. government agency bonds	 	 	1,000	 	 	4	 	 	—	 	 	1,004	 	
Non-U.S. government bonds	 	 	5,553	 	 	86	 	 	—	 	 	5,639	 	
Other	 	 	3,019	 	 	111	 	 	(26	)	 	3,104	 	

	

	 	

	

	 	

	

	 	

	

	 	
 	 	$	61,651	 	$	939	 	$	(26	)	$	62,564	 	

	

	 	

	

	 	

	

	 	

	

	 	

 	* Included in current marketable securities of $31,170 and long-term marketable securities of $31,394 at December 31, 2010.	
          All marketable debt securities are classified as available-for-sale. Other securities are predominantly mutual fund shares belonging to participants in the Company’s Executive Deferred Compensation Plan totaling $2.5 million fair value as of December 31, 2011 (in current assets) and $3.1 million fair value as of December 31, 2010 (in long-term other assets). As of December 31, 2011, there is a current liability that offsets the aggregate deferred compensation plan current assets. As of December 31. 2010, the offsetting liability was included in other liabilities (long-term).

          Fair value is determined from readily available Level 2 vendor quoted prices utilizing observable inputs based on active markets. As of December 31, 2011 and 2010, the Company’s marketable securities are all valued based on Level 2 inputs.

F-12

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          Maturities of marketable debt securities, based on contractual maturity and excluding securities related to the Company’s Executive Deferred Compensation Plan, at December 31, 2011 were as follows (in thousands):
 	 	 	 	 	 	 	 	
 	 	Amortized
Cost	 	Fair
Value	 	

	 	

	 	
 	 	 	 	 	 	 	 	
Due in one year or less	 	$	55,616	 	$	55,660	 	
Due after one through three years	 	 	141,506	 	 	141,485	 	
Due more than three years*	 	 	19,295	 	 	19,295	 	

	

	 	

	

	 	
 	 	$	216,417	 	$	216,440	 	

	

	 	

	

	 	

 	* Securities maturing over three years based on contractual maturities are variable rate demand notes which contain a put feature allowing them to be put back to the issuer weekly.	
          During the years ended December 31, 2011 and 2010, the Company realized gains from the sale of marketable securities of $0.2 million and $0.6 million, respectively. For 2009, there was an immaterial loss realized. During the quarter ended September 30, 2010, the Company recorded an other-than-temporary impairment loss of $0.9 million related to an auction rate security of a bankrupt issuer. The Company still holds this security but no longer expects to recover any of its cost. The Company will continue to monitor this instrument for any signs of recovery.

          Impairment assessments are made at the individual security level each reporting period. When the fair value of an investment is less than its cost at the balance sheet date, a determination is made as to whether the impairment is other-than-temporary and, if it is other-than-temporary, an impairment loss is recognized in earnings equal to the difference between the investment’s amortized cost and fair value at such date. As of December 31, 2011, some of the Company’s investments were in an unrealized loss position. None of the underlying investments has been in a continuous loss position longer than twelve months, and no other-than-temporary impairment is deemed to have occurred. The Company maintains a short-term liability for the fair value of the investments in the Executive Deferred Compensation Plan, and any losses ultimately realized related to these holdings are borne by the plan participants.

(5) Property and Equipment

          Property and equipment consist of the following (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	December 31,
2011	 	December 31,
2010	 	Estimated
Useful Lives	 	

	 	

	 	

	 	
Leasehold improvements	 	$	25,532	 	$	27,034	 	 	2-14 years	*	
Equipment	 	 	30,052	 	 	30,002	 	 	2-6 years	 	
Furniture and fixtures and other	 	 	1,791	 	 	2,824	 	 	6 years	 	

	

	 	

	

	 	 	 	 	
 	 	 	57,375	 	 	59,860	 	 	 	 	
Less: Accumulated depreciation	 	 	40,573	 	 	38,286	 	 	 	 	

	

	 	

	

	 	 	 	 	
 	 	$	16,802	 	$	21,574	 	 	 	 	

	

	 	

	

	 	 	 	 	
          * Shorter of the lease term or lives indicated

          Depreciation charged to operations relating to property and equipment totaled $5.3 million, $5.8 million, and $6.9 million for the years ended December 31, 2011, 2010 and 2009, respectively.

F-13

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          During 2011, the Company eliminated from its books and records fully-depreciated leasehold improvements of $1.2 million and fully-depreciated furniture and fixtures of $1.0 million at its former Bridgewater, New Jersey headquarters facility in connection with the lease terminations for the first and third floors (See Note 13, Restructurings and Note 20, Leases).

(6) Notes Payable

          The 4% notes mature on June 1, 2013 unless earlier redeemed, repurchased or converted. The 4% notes are senior unsecured obligations and rank equal to all future senior unsecured debt of the Company. The 4% notes are convertible at the option of the holders into the Company’s common stock at an initial conversion price of $9.55 per share (104.712 shares per $1,000 principal amount). If the closing price of the Company’s common stock for at least 20 trading days in the 30-consecutive-trading-day period ending on the date one day prior to the date of a notice of redemption is greater than 140 percent of the applicable conversion price on the date of such notice, the Company, at its option, may redeem the 4% notes in whole or in part, at a redemption price in cash equal to 100 percent of the principal amount of the 4% notes to be redeemed, plus accrued and unpaid interest, if any, to the redemption date.

          Upon occurrence of a fundamental change, as defined in the indenture governing the 4% notes, holders of the notes may require the Company to redeem the notes at a price equal to 100 percent of the principal amount plus accrued and unpaid interest or, in certain cases, to convert the notes at an increased conversion rate based on the price paid per share of the Company’s common stock in the five-trading-day period prior to the transaction constituting the fundamental change. The January 29, 2010 sale of the Company’s specialty pharmaceutical business constituted a fundamental change and triggered a requirement that the Company offer to purchase all of its 4% notes at face value. Such an offer was made on February 5, 2010. The offer expired on March 5, 2010 with no notes having been tendered. The fundamental change also triggered a change in the conversion rate from 104.712 shares per $1,000 principal amount of notes to 116.535 shares per $1,000 principal amount during the period January 29, 2010 to March 4, 2010. During this period, notes totaling $115.6 million principal amount were converted into approximately 13.5 million shares of common stock of the Company, reducing the outstanding principal balance of the notes outstanding to $134.5 million. Subsequent to March 4, 2010, the date the enhanced conversion period ended, the original conversion rate of 104.712 shares per $1,000 principal amount of notes is again in effect.

          During the fourth quarter of 2011, the Company repurchased $5.0 million principal amount of its 4% notes at par and wrote-off approximately $30,000 of deferred debt issuance costs. During the first quarter of 2009, the Company repurchased $20.5 million principal amount of its 4% notes at a discount to par, resulting in a gain of approximately $4.5 million, net of the write-off of $0.3 million of deferred debt issuance costs. As of December 31, 2011, the balance of unamortized deferred debt issuance costs is approximately $0.7 million.

          Interest on the 4% notes is payable on June 1 and December 1 of each year. Accrued interest on the 4% notes amounted to $0.4 million as of December 31, 2011 and 2010.

F-14

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(7) Accrued Expenses and Other

          Accrued expenses and other current liabilities consists of the following as of December 31, 2011 and 2010 (in thousands):
 	 	 	 	 	 	 	 	
 	 	December 31,
2011	 	December 31,
2010	 	

	 	

	 	
Compensation	 	$	2,634	 	$	5,725	 	
Severance benefits	 	 	3,843	 	 	3,623	 	
Professional and consulting fees	 	 	658	 	 	667	 	
Insurance and taxes	 	 	488	 	 	386	 	
Interest	 	 	432	 	 	448	 	
Deferred compensation plan liability	 	 	2,533	 	 	—	 	
Other	 	 	3,104	 	 	3,346	 	

	

	 	

	

	 	
 	 	$	13,692	 	$	14,195	 	

	

	 	

	

	 	
(8) Stockholders’ Equity

Preferred Stock

          The Company has authorized 3,000,000 shares of preferred stock in one or more series of which 600,000 are designated as Series B in connection with the Rights Plan.

Common Stock

          As of December 31, 2011, the Company has reserved shares of its common stock for the purposes detailed below (in thousands):
 	 	 	 	 	
Non-Qualified and Incentive Stock Plans	 	 	8,930	 	
Shares issuable upon conversion of 4% Notes due 2013	 	 	13,560	 	
Employee Stock Purchase Plan	 	 	600	 	

	

	 	
 	 	 	23,090	 	

	

	 	
Share Repurchase Programs

          On December 21, 2010, the Company announced a share repurchase program, under which management may use up to $200.0 million to purchase the Company’s outstanding common shares. Transactions in the Company’s stock are recorded on a settlement date basis. Through December 31, 2010, the Company paid approximately $0.4 million to repurchase and retire 30,000 shares at an average cost of $12.45 per share. Since the inception of the Company’s repurchase program, the cumulative number of shares repurchased and retired through September 30, 2011 amounts to 11,461,449 shares at a total cost of $121.5 million, or an average cost per share of approximately $10.60. During the third quarter of 2011, the Company decided to suspend the repurchase program.

          On December 3, 2009, the Company announced a share repurchase program under which management may use up to $50.0 million to purchase the Company’s outstanding common shares. During the fourth quarter of 2010, the Company completed the entire $50.0 million program, retiring approximately 4.7 million shares in total at an average cost of $10.63 per share. Approximately $48.0 million was paid in 2010 to purchase approximately 4.5 million shares at an average cost of $10.65 per share.

F-15

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Rights Plan

          Holders of the Company’s common stock own one preferred stock purchase right for each share of common stock owned by such holder. These rights currently entitle holders of our common stock to purchase one one-thousandth of a share of our Series B preferred stock for $190.00, except, in certain circumstances described below, holders may receive common stock. However, the rights are not immediately exercisable and will become exercisable only upon the occurrence of certain events. If a person or group acquires, or announces a tender or exchange offer that would result in the acquisition of 15 percent or more of our common stock while the stockholder rights plan remains in place, then, unless (1) the rights are redeemed by us for $0.01 per right or (2) the board of directors determines that a tender or exchange offer for all of our outstanding common stock is in the best interest of the Company and the stockholders, the rights will become exercisable by all rights holders, except the acquiring person or group, for (i) shares of our common stock or (ii) in certain circumstances, shares of the third-party acquirer, each having a value of twice the right’s then-current exercise price. Pursuant to an amendment to the rights plan dated July 23, 2009, stockholders may beneficially own less than 19 percent of the outstanding shares of common stock of the Company without becoming an acquiring person and thereby triggering the rights under the plan. Prior to the amendment, stockholders who reported beneficial ownership of the common stock of the Company on Schedule 13G under the Securities Exchange Act of 1934, as amended, could beneficially own less than 20 percent of the outstanding shares of common stock of the Company without becoming an acquiring person, and all other stockholders could beneficially own less than 15 percent of the outstanding shares of common stock of the Company without becoming an acquiring person. The rights expire on May 16, 2012.

(9) Sale of In-Process Research and Development

          When the Company sold its specialty pharmaceutical business in January 2010, it retained its research and development organization. Prior to the sale, the Company’s research and development function was engaged in, among other things, studies oriented towards the next-generation formulations of Oncaspar and Adagen, two products that were among those sold as part of the specialty pharmaceuticals business. The in-process research and development related to those two products was included in the sale. The $40.9 million selling price was management’s best estimate of its standalone fair value based on the stage of development and consideration of future milestone payments. All necessary technology and knowhow was transferred to the purchaser at the time of the sale, and the purchaser could resell the in-process research and development asset. The activities necessary to complete the work on the Oncaspar and Adagen next-generation formulations could be performed by the purchaser or others. No portion of the selling price was attributed to the transition services agreement referred to below in Note 22, Discontinued Operations, as that agreement represents an arm’s-length market rate of return for the services being provided and those services are completely separate from the in-process research and development.

          During 2011, the Company earned a $5.0 million milestone payment from the purchaser of the specialty pharmaceutical business resulting from the approval of a supplemental Biologic License Application (sBLA) for the manufacture of SS Oncaspar.

(10) Contract Research and Development Revenue and Miscellaneous Income

          Contract research and development is specific to the transition services agreement the Company entered into with the purchaser of the specialty pharmaceutical business. The transition services agreement was initiated in January 2010 at the time of the sale. It provides for a reimbursement for services provided by the Company plus a mark-up and totaled $1.4 million and $9.3 million in 2011 and 2010, respectively. These services could continue for up to three years after the sale, but diminished significantly during the course 2011.

          Miscellaneous income includes income received pursuant to the transition services agreement related to general and administrative support to the purchaser of the specialty pharmaceutical business and sublease revenues received by the Company from tenants under terms of sublease agreements. These

F-16

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

transitional services were minimal in 2011 ($0.1 million) versus 2010 ($2.4 million) as the term of the agreement for other than research and development support activities was approximately one year from January 2010. Sublease revenues of $0.6 million and $0.3 million for 2011 and 2010, respectively, relate to the Company’s leased facility in South Plainfield, New Jersey, which commenced in 2009 and runs through October 2012, and excess leased office space in Bridgewater, New Jersey, which commenced in 2011 as a result of the first quarter relocation to Piscataway, New Jersey and will continue through January 2013 (see Note 20, Leases).

(11) Comprehensive (Loss) Income

          Comprehensive (loss) income consists primarily of net (loss) income and net unrealized gain (loss) on marketable securities available-for-sale and is presented in the consolidated statements of stockholders’ equity. The following table reconciles net (loss) income to comprehensive (loss) income (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	

	

	

	

	 	
Net (loss) income	 	$	(20,763	)	$	177,243	 	$	683	 	

	

	 	

	

	 	

	

	 	
Other comprehensive (loss) income:	 	 	 	 	 	 	 	 	 	 	
Unrealized (loss) gain on securities that
arose during the year*	 	 	(671	)	 	(979	)	 	3,236	 	
Currency translation adjustment*	 	 	—	 	 	(742	)	 	730	 	
Reclassification adjustments*:	 	 	 	 	 	 	 	 	 	 	
Impairment loss included in net loss	 	 	—	 	 	896	 	 	—	 	
(Gain) loss on sale of securities	 	 	(240	)	 	(589	)	 	11	 	

	

	 	

	

	 	

	

	 	
Total other comprehensive (loss) income	 	 	(911	)	 	(1,414	)	 	3,977	 	

	

	 	

	

	 	

	

	 	
Total comprehensive (loss) income	 	$	(21,674	)	$	175,829	 	$	4,660	 	

	

	 	

	

	 	

	

	 	

 	 	
 	* Information has not been tax-effected due to the establishment of a full allowance against any related net deferred tax asset.	
(12) Loss Per Common Share

          Basic loss and earnings per common share is computed by dividing the loss from continuing operations, income from discontinued operations, and net loss and income by the weighted average number of shares of common stock outstanding during the period. Restricted stock awards and restricted stock units (collectively, nonvested shares) are not considered to be outstanding shares until the service or performance vesting period has been completed.

          The diluted loss and earnings per share calculation would normally involve adjusting both the denominator and numerator as described here if the effect is dilutive. The denominator would include both the weighted average number of shares of common stock outstanding and common stock equivalents. Dilutive common stock equivalents potentially include stock options and nonvested shares using the treasury stock method, shares issuable under the employee stock purchase plan (ESPP), and the number of shares issuable upon conversion of the Company’s 4% convertible senior notes payable. In the case of notes payable, the diluted earnings per share calculation would be further affected by an add-back of interest to the numerator under the assumption that the interest would not have been incurred if the notes were converted into common stock.

          In a period in which a loss from continuing operations is reported, all computations of diluted per-share amounts for that period must be made exclusive of potential dilutive shares and the add-back of interest. Accordingly, for each of the three years ended December 31, 2011, 2010 and 2009, diluted loss and earnings per share for discontinued operations and net loss and income are the same as the corresponding basic loss and earnings per share.

F-17

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          The following table illustrates the computation of basic and diluted loss and earnings per share for the years ended December 31, 2011, 2010 and 2009 (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
(Loss) Earnings Per Common Share – Basic and Diluted:	 	 	 	 	 	 	 	 	 	 	
Loss from continuing operations	 	$	(20,763	)	$	(2,800	)	$	(57,202	)	

	

	 	

	

	 	

	

	 	
Income and gain from discontinued operations, net	 	$	—	 	$	180,043	 	$	57,885	 	

	

	 	

	

	 	

	

	 	
Net (loss) income	 	$	(20,763	)	$	177,243	 	$	683	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Weighted average common shares outstanding	 	 	51,910	 	 	58,466	 	 	45,186	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	
Basic and diluted (loss) earnings per share:	 	 	 	 	 	 	 	 	 	 	
Continuing operations	 	$	(0.40	)	$	(0.05	)	$	(1.26	)	

	

	 	

	

	 	

	

	 	
Discontinued operations	 	$	—	 	$	3.08	 	$	1.28	 	

	

	 	

	

	 	

	

	 	
Net (loss) income	 	$	(0.40	)	$	3.03	 	$	0.02	 	

	

	 	

	

	 	

	

	 	
          For the years ended December 31, 2011, 2010 and 2009, the Company had potentially dilutive common stock equivalents excluded from the computation of diluted earnings per share amounting to 17.4 million, 18.8 million, and 35.4 million shares, respectively.

(13) Restructurings

          The Company incurred the following charges in connection with its restructuring programs during the years ended December 31, 2011, 2010 and 2009 (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
Employee separation benefits:	 	 	 	 	 	 	 	 	 	 	
Fourth-quarter 2011	 	$	1,485	 	$	—	 	$	—	 	
Third-quarter 2011	 	 	2,835	 	 	—	 	 	—	 	
Second-quarter 2011	 	 	734	 	 	—	 	 	—	 	
Fourth-quarter 2010	 	 	(72	)	 	2,974	 	 	—	 	
First-quarter 2010	 	 	(60	)	 	9,736	 	 	—	 	
First-quarter 2009	 	 	—	 	 	—	 	 	693	 	

	

	 	

	

	 	

	

	 	
 	 	 	4,922	 	 	12,710	 	 	693	 	
Other restructuring costs:	 	 	1,103	 	 	1,316	 	 	—	 	

	

	 	

	

	 	

	

	 	
Total restructuring charges	 	$	6,025	 	$	14,026	 	$	693	 	

	

	 	

	

	 	

	

	 	
Employee Separation Benefits

          During the fourth quarter of 2011, the Company recorded total restructuring charges in the amount of $1.4 million, of which $1.1 million related to the departure of the Company’s Chief Operating Officer for severance payments and benefits that are payable under the terms of the Amended and Restated Severance Agreement. Additionally, there were several research and development positions identified for elimination resulting in a charge of approximately $0.3 million for separation benefits. As of December 31, 2011, there was approximately $1.2 million remaining to be paid in accrued expenses under current liabilities.

F-18

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          During the third quarter of 2011, the Company announced a plan to reduce its workforce and operating costs to more closely align its resources and capital with the Company’s research and development activities. The reduction in force will reduce the number of employees by approximately 48 percent, to a total of approximately 47, by June 2012. Separation payments will be made for up to a year following the respective separations. In connection with this restructuring, the Company recorded in the third quarter of 2011 a charge of approximately $2.9 million for separation benefits. As of December 31, 2011, there was approximately $2.6 million remaining to be paid, of which approximately $2.0 is in accrued expenses under current liabilities.

          During the second quarter of 2011, the Company recorded a restructuring charge in the amount of $0.7 million related to the departure of the Company’s Executive Vice President, Human Resources & Administration for severance payments and benefits that are payable under the terms of the Severance and Release Agreement. As of December 31, 2011, there was approximately $0.3 million remaining to be paid in accrued expenses under current liabilities.

          There were two restructurings initiated during 2010, both of which reflected the transition of the Company from a fully integrated biopharmaceutical company with research, manufacturing and marketing operations to a biotechnology company focused primarily on research and development. The fourth-quarter 2010 restructuring program was part of the Company’s continued efforts to streamline corporate administrative operations and affected approximately 33 positions. Affected employees were notified in December 2010 and the majority of the terminations occurred during the first quarter of 2011. Separation payments will be made for up to a year following the respective separations. In connection with this restructuring, the Company recorded in the fourth quarter of 2010 a charge of approximately $3.0 million for separation benefits. As of December 31, 2011, there was approximately $0.4 million remaining to be paid in accrued expenses under current liabilities.

          During the first quarter of 2010, the Company recorded restructuring charges of $9.7 million, of which $6.1 million was for separation benefits resulting from a workforce reduction involving 64 employees. These actions related primarily to the sale of the specialty pharmaceutical business, including several employees who were previously engaged in activities related to the divested business but who did not transfer to the employment of the purchaser. These employees were provided with separation benefits after certain transition periods during which they assisted with an orderly transfer of activities and information to the purchaser. The Company also reassessed its staffing requirements subsequent to the sale of the specialty pharmaceutical business in light of the lessened demands on many of its general and administrative functions. Additionally, the Company’s former President and Chief Executive Officer resigned from the Company effective February 22, 2010, resulting in $3.6 million of expenses for severance payments and benefits that were payable per the terms of the individual’s employment agreement. Payments due pursuant to the termination agreement were made during the third quarter of 2010.

          The following table reflects the 2011 and 2010 restructuring accrual activity for separation benefits and the resulting liabilities as of December 31, 2011 and 2010 (in thousands):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Employee Separation Benefits	 	

	 	
 	 	4Q-11	 	3Q-11	 	2Q-11	 	4Q-10	 	1Q-10	 	Total	 	

	 	

	 	

	 	

	 	

	 	

	 	
Balance at December 31, 2009	 	$	—	 	$	—	 	$	—	 	$	—	 	$	—	 	$	—	 	
2010 restructuring accruals	 	 	—	 	 	—	 	 	—	 	 	2,974	 	 	9,889	 	 	12,863	 	
2010 payments made	 	 	—	 	 	—	 	 	—	 	 	—	 	 	(8,837	)	 	(8,837	)	
2010 adjustments	 	 	—	 	 	—	 	 	—	 	 	—	 	 	(153	)	 	(153	)	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Balance at December 31, 2010	 	$	—	 	$	—	 	$	—	 	$	2,974	 	$	899	 	$	3,873	 	
2011 payments made	 	 	—	 	 	—	 	 	—	 	 	(2,544	)	 	(839	)	 	(3,383	)	
2011 adjustments	 	 	—	 	 	—	 	 	—	 	 	(72	)	 	(60	)	 	(132	)	
2011 restructuring accruals	 	 	1,485	 	 	2,872	 	 	662	 	 	—	 	 	—	 	 	5,019	 	
2011 payments made	 	 	(301)	 	 	(205)	 	 	(350)	 	 	—	 	 	—	 	 	(856)	 	
2011 adjustments	 	 	—	 	 	(37)	 	 	—	 	 	—	 	 	—	 	 	(37)	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Balance at December 31, 2011	 	$	1,184	 	$	2,630	 	$	312	 	$	358	 	$	—	 	$	4,484	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
F-19

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Other Restructuring Costs

          During the third quarter of 2011, the Company recorded a restructuring charge in the amount of $0.7 million to terminate an operating lease related to the third and first floors of the its former Bridgewater, New Jersey headquarters facility, of which $0.2 million is reflected in accrued expenses under current liabilities as of December 31, 2011. Termination payments will be completed during the first quarter of 2012 (see Note 20, Leases).

          During the first quarter of 2011, the Company recorded a restructuring charge in the amount of $0.4 million related to the excess of committed lease costs over potential sublease income for office space in Bridgewater, New Jersey that was vacated during the quarter when the Company relocated its corporate headquarters to Piscataway, New Jersey.

          During the third quarter of 2010, the Company entered into a sublease for the second floor of its former Bridgewater, New Jersey headquarters facility. This space became unused as a result of the reductions in workforce stemming from earlier restructuring efforts related to the sale of the specialty pharmaceutical business. The $0.4 million charge represents the excess of the Company’s contractual lease commitment over the amount of cash to be received from the subtenant over the life of the sublease arrangement.

          During the second quarter of 2010, the Company recorded a restructuring charge in the amount of $0.9 million to write off certain leasehold improvements and furnishings located at its former Bridgewater, New Jersey headquarters facility that were determined to be excess and without future value as a result of the termination and relocation of several employees.

(14) Stock Options

          Through the Compensation Committee of the Board of Directors, the Company administers the 2011 Incentive Stock Plan, which provides incentive and non-qualified stock option benefits for employees, officers, directors and independent contractors providing services to Enzon and its subsidiaries. The 2011 Incentive Stock Plan was adopted by the Board of Directors in March 2011 and approved by the stockholders in May 2011. Prior to this, the Company administered the 2001 Incentive Stock Plan, which was adopted by the Board of Directors in October 2001 and approved by the stockholders in December 2001. Options granted to employees generally vest over four years from date of grant and options granted to directors vest after one year. The exercise price of the options granted must be at least 100 percent of the fair value of the Company’s common stock at the time the options are granted. Options may be exercised for a period of up to ten years from the grant date. As of December 31, 2011, approximately 528,000 shares of common stock were reserved for issuance pursuant to granted options and awards under the 2011 plan. Approximately 4.5 million shares remain available for grant. Option grants remain outstanding from previous awards under the 2001 Incentive Stock Plan and an earlier 1987 Non-Qualified Stock Option Plan; however, there will be no further grants made pursuant to those plans.

          In March 2011, the Board of Directors adopted a new compensation plan for non-employee directors, effective April 1, 2011. Under the 2011 Outside Director Compensation Plan, each non-employee director receives an annual grant of stock options (Annual Option Grant) on the first trading day of the calendar year with a Black-Scholes value of $25,000 and an exercise price equal to the closing price of our common stock on the date of grant. The Annual Option Grant vests in one tranche on the first anniversary, provided that the recipient director remains on the Board, and expires on the tenth anniversary of the date of grant. In addition, upon the election of a new non-employee director to the Board, such newly elected director receives a Welcome Grant of stock options with a Black-Scholes value of $25,000 and an exercise price equal to the closing price of our common stock on the date of grant. The Welcome Grant vests in three equal tranches on each of the first three anniversaries, provided that the recipient director remains on the Board, and expires on the tenth anniversary of the date of grant. Furthermore, for a non-employee Chairperson of the Board, the value of options covered by the Annual Option Grant and the Welcome Grant shall be twice the amounts mentioned above. For a non-employee Vice-Chairperson of the Board, the value of options covered by the Annual Option Grant and the Welcome Grant shall be one and a half times the amounts mentioned above. Options granted in accordance with the 2011 Outside Director Compensation Plan will be made under the 2011 Incentive Stock Plan.

F-20

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          Prior to April 1, 2011, under the 2007 Outside Director Compensation Plan, each non-employee director received an annual grant of stock options (Annual Option Grant) on the first trading day of the calendar year with a Black-Scholes value of $75,000 and an exercise price equal to the closing price of our common stock on the date of grant. The Annual Option Grant vested in one tranche on the first anniversary, provided that the recipient director remained on the Board, and expired on the tenth anniversary of the date of grant. In addition, upon the election of a new non-employee director, such newly elected director received a Welcome Grant of stock options with a Black-Scholes value of $75,000 and an exercise price equal to the closing price of our common stock on the date of grant. The Welcome Grant vested in three equal tranches on each of the first three anniversaries, provided that the recipient director remained on the Board, and expired on the tenth anniversary of the date of grant. Furthermore, for a non-employee Chairperson of the Board, the value of options covered by the Annual Option Grant and Welcome Grant were twice the amounts mentioned above. Options granted in accordance with the 2007 Outside Director Compensation Plan were made under the 2001 Incentive Stock Plan.

          The following is a summary of the activity in the Company’s outstanding Stock Option Plans, which include the 2011 Incentive Stock Plan, the 2001 Incentive Stock Plan, and the 1987 Non-Qualified Stock Option Plan (options in thousands):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Options	 	Weighted
Average
Exercise
Price Per
Option	 	Weighted
Average
Remaining
Contractual
Term (years)	 	Aggregate
Intrinsic
Value ($000)	 	

	

	

	

	

	

	

	 	
Outstanding at January 1, 2011	 	 	3,993	 	$	13.21	 	 	 	 	 	 	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Granted at exercise prices which equaled the fair value on the date of grant	 	 	311	 	$	9.39	 	 	 	 	 	 	 	
Exercised	 	 	(674	)	$	8.09	 	 	 	 	 	 	 	
Forfeited	 	 	(17	)	$	12.40	 	 	 	 	 	 	 	
Expired	 	 	(492	)	$	24.30	 	 	 	 	 	 	 	

	

	 	 	 	 	 	 	 	 	 	 	
Outstanding at December 31, 2011	 	 	3,121	 	$	12.19	 	 	3.45	 	$	2,231	 	

	

	 	 	 	 	 	 	 	 	 	 	
Vested and expected to vest at December 31, 2011	 	 	3,060	 	$	12.27	 	 	3.33	 	$	2,127	 	

	

	 	 	 	 	 	 	 	 	 	 	
Exercisable at December 31, 2011	 	 	2,786	 	$	12.55	 	 	2.74	 	$	1,776	 	

	

	 	 	 	 	 	 	 	 	 	 	
          As of December 31, 2011, there was $0.6 million of total unrecognized compensation cost related to unvested options that the Company expects to recognize over a weighted-average period of 14 months. The Board of Directors of the Company elected to accelerate the vesting of certain stock options granted under the Company’s 2001 Incentive Stock Plan as of the consummation of the sale of the specialty pharmaceutical business in January 2010. This acceleration affected outstanding options held by employees at the vice president level and below and resulted in an additional expense of $0.2 million in the first quarter of 2010 and $0.1 million in 2009. The charges primarily represented an acceleration of expense recognition pursuant to the original award and, to a lesser extent, an adjustment to recognize the modification of the award in contemplation of the sale.

          The weighted-average grant-date fair value of options granted during the years ended December 31, 2011, 2010 and 2009 was $3.29, $4.42, and $2.45, respectively. The total intrinsic value of options exercised during the years ended December 31, 2011, 2010 and 2009 was $1.9 million, $11.8 million, and $26 thousand, respectively. During the year ended December 31, 2011, the grant-date fair value of options that vested was $1.2 million.

F-21

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          In the years ended December 31, 2011, 2010 and 2009, the Company recorded stock-based compensation of $0.7 million, $2.2 million, and $3.2 million, respectively, related to stock options. The Company did not realize a net tax benefit related to stock-based compensation expense. The Company’s policy is to use newly issued shares to satisfy the exercise of stock options.

          The breakdown of stock-based compensation expense by major line caption in the statements of operations is shown below (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	

	 	

	

	 	

	

	 	
Research and development	 	$	26	 	$	377	 	$	804	 	
General and administrative	 	 	684	 	 	1,787	 	 	2,394	 	

	

	 	

	

	 	

	

	 	
 	 	$	710	 	$	2,164	 	$	3,198	 	

	

	 	

	

	 	

	

	 	
          Cash received from exercises of stock options for the years ended December 31, 2011, 2010 and 2009, was $5.5 million, $31.8 million, and $0.1 million, respectively.

          The weighted average assumptions used in the Black-Scholes option-pricing model for expected volatility, expected term until exercise and risk-free interest rate are shown in the table below. Expected volatility is based on historical volatility of the Company’s common stock. The expected term of options is estimated based on the Company’s historical exercise pattern. The risk-free interest rate is based on U.S. Treasury yields for securities in effect at the time of grant with terms approximating the expected term until exercise of the option. No dividend payments were factored into the valuations. Forfeiture rates, used for determining the amount of compensation cost to be recognized over the service period, are estimated based on stratified historical data.
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended
December 31,
2011	 	Year Ended
December 31,
2010	 	Year Ended
December 31,
2009	 	

	

	 	

	

	 	

	

	 	
Expected volatility	 	 	42	%	 	42	%	 	41	%	
Expected term (in years)	 	 	4.1	 	 	5.4	 	 	5.4	 	
Risk-free interest rate	 	 	1.5	%	 	2.6	%	 	1.7	%	
(15) Restricted Stock Awards and Restricted Stock Units (Nonvested Shares)

          The 2011 Incentive Stock Plan and, prior to that, the 2001 Incentive Stock Plan provide for the issuance of restricted stock awards and restricted stock units (collectively, nonvested shares) to employees, officers and directors. These awards are issued by the Company effective as of the grant date, in the case of restricted stock awards, or upon the vesting date, in the case of a restricted stock unit. The recipient pays no cash to receive the shares, other than the $0.01 par value in some cases. These awards have vesting periods of three to five years when based solely on service. Certain awards have performance goals which, if met, result in accelerated vesting that could be shorter than three years. If the performance goals are not met, the awards continue to vest over time. All nonvested shares are valued at fair value. The market price of the Company’s stock at grant date is factored by an expected vesting period forfeiture rate based on stratified historical data related to the assumed vesting period. This amount is then amortized over the vesting period on a straight-line basis for those awards that vest based solely on service. For awards subject to performance-based accelerated vesting, the Company monitors progress against performance goals and accelerates the compensation expense as appropriate.

          Under the 2011 Outside Director Compensation Plan, each non-employee director receives an annual grant of restricted stock units (Annual Restricted Stock Grant) settled in shares of common stock on the first trading day after June 30 of each calendar year with a value of $75,000. The Annual Restricted Stock Grant vests in three equal tranches on each of the first three anniversaries of the date of grant, provided that the recipient director remains on the Board. In addition, upon the election of a new non-employee director to the Board, such newly elected director receives a Welcome Grant of restricted stock units settled in shares of common stock with a value of $100,000. The Welcome Grant vests in three equal tranches on each of the first three anniversaries of the date of grant, provided that the recipient director remains on the Board. Furthermore, for a non-employee Chairperson of the Board, the value of restricted stock units covered by the Annual Restricted Stock Grant and the Welcome Grant shall be twice the amounts mentioned above. For a non-employee Vice-Chairperson of the Board, the value of options covered by the Annual Restricted Stock Grant and the Welcome Grant shall be one and a half times the amounts mentioned above. Restricted stock units granted in accordance with the 2011 Outside Director Compensation Plan will be made under the 2011 Incentive Stock Plan.

F-22

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          Prior to April 1, 2011, under the 2007 Outside Director Compensation Plan, each non-employee director received an annual grant of restricted stock (Annual Restricted Stock Grant) settled in shares of common stock on the first trading day after June 30 of each calendar year with a value of $75,000. The Annual Restricted Stock Grant vested in three equal tranches on each of the first three anniversaries of the date of grant, provided that the recipient director remained on the Board. In addition, upon the election of a new non-employee director, such newly elected director received a Welcome Grant of restricted stock with a value of $75,000. The Welcome Grant vested in three equal tranches on each of the first three anniversaries of the date of grant, provided that the recipient director remained on the Board. Furthermore, for a non-employee Chairperson of the Board, the value of restricted stock covered by the Annual Restricted Stock Grant and Welcome Grant were twice the amounts mentioned above. Restricted stock units granted in accordance with the 2007 Outside Director Compensation Plan were made under the 2001 Incentive Stock Plan.

          A summary of nonvested shares as of December 31, 2011 and changes during the year ended December 31, 2011 is provided below (shares in thousands):
 	 	 	 	 	 	 	 	
 	 	Number of
Nonvested
Shares	 	Weighted
Average
Grant Date
Fair Value
Per Share	 	

	

	 	

	

	 	
Nonvested at January 1, 2011	 	 	753	 	$	10.41	 	
Granted	 	 	393	 	$	9.43	 	
Vested	 	 	(342	)	$	10.44	 	
Forfeited	 	 	(130	)	$	10.02	 	

	

	 	 	 	 	
Nonvested at December 31, 2011	 	 	674	 	$	10.14	 	

	

	 	 	 	 	
          Of the total number of nonvested shares granted during the year, 203,000 are performance-based and had a grant date fair value of $10.53 per share. The total grant-date fair value of nonvested shares that vested during the year ended December 31, 2011 was $3.6 million.

          As of December 31, 2011, there was $4.6 million of total unrecognized compensation cost related to nonvested shares that the Company expects to be recognized over a weighted average period of 24 months, reflective of the blend of service and performance elements. The weighted average vesting period could be affected if the remaining performance goals become probable of being achieved and the related vesting period is shortened as a result.

          In the years ended December 31, 2011, 2010 and 2009, the Company recorded stock-based compensation expense of $2.4 million, $4.6 million, and $4.5 million related to nonvested share awards, which is included in the Company’s net income for each respective period. Of the 2010 expense, $1.2 million related to vesting of performance-based awards. The board of directors of the Company elected to accelerate the vesting of certain nonvested share awards granted under the Company’s 2001 Incentive Stock Plan as of the consummation of the sale of the specialty pharmaceutical business in January 2010. This acceleration resulted in an estimated $0.8 million additional expense in the first quarter of 2010 and $0.5 million in 2009. The charges primarily represented an acceleration of expense recognition pursuant to the original award and, to a lesser extent, an adjustment, in certain cases, to recognize the modification of the award in contemplation of the sale. The Company’s policy is to use newly issued shares to satisfy nonvested share awards. There has been no tax benefit realized to date related to tax deductions for nonvested shares.

F-23

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          The breakdown of stock-based compensation expense by major line caption in the statements of operations is shown below (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	

	 	

	

	 	

	

	 	
Research and development	 	$	1,281	 	$	1,643	 	$	1,223	 	
General and administrative	 	 	1,082	 	 	2,963	 	 	3,268	 	

	

	 	

	

	 	

	

	 	
 	 	$	2,363	 	$	4,606	 	$	4,491	 	

	

	 	

	

	 	

	

	 	
(16) Employee Stock Purchase Plan

          The 2007 Employee Stock Purchase Plan (ESPP) permits eligible employees to purchase common stock through payroll deductions which may not exceed 15 percent of the employee’s compensation, as defined, at a price equal to 85 percent of the fair market value of the shares at the beginning of the offering period (grant date) or at the end of the offering period (purchase date), whichever is lower. There are two six-month offering periods in each plan fiscal year, beginning April 1 and October 1. The ESPP is intended to qualify under section 423 of the Internal Revenue Code. Individual participant purchases within a given calendar year are limited to $25,000 ($21,250 based on the 15-percent discount) and no more than 2,500 shares on any single purchase date. An additional one million shares were reserved for issuance under the plan. All benefit-eligible employees of the Company may participate in the ESPP other than those who own shares or hold options or nonvested shares representing a combined 5 percent or more of the voting power of the Company’s outstanding stock. Unless terminated sooner, the ESPP will terminate on January 25, 2017.

          The fair value of shares to be issued under the ESPP is estimated at the grant date and is comprised of two components: the 15 percent discount to fair value of the shares at grant date and the value of the option granted to participants pursuant to which they may purchase shares at the lower of either the grant date or the purchase date fair value. The option component is valued using the Black-Scholes option pricing model.

          The initial assumptions used in the valuation for each offering period, April 1 and October 1, are reflected in the following table (no dividends were assumed):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	2011	 	2010	 	2009	 	

	 	

	 	

	 	
 	 	 	October	 	 	April	 	 	October	 	 	April	 	 	October	 	 	April	 	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	

	 	
Expected volatility	 	 	32.02	%	 	22.17	%	 	30.31	%	 	31.80	%	 	39.52	%	 	95.62	%	
Expected term (in years)	 	 	0.5	 	 	0.5	 	 	0.5	 	 	0.5	 	 	0.5	 	 	0.5	 	
Risk-free interest rate	 	 	0.12	%	 	0.20	%	 	0.24	%	 	0.19	%	 	0.19	%	 	0.39	%	
          Increases in individual withholding rates within the offering period could have the effect of establishing a new measurement date for that individual’s future contributions. Compensation expense recognized for the ESPP was approximately $66,000, $99,000, and $172,000 for the years ended December 31, 2011, 2010 and 2009, respectively. Amounts withheld from participants are classified as cash from financing activities in the cash flow statement and as a liability in the balance sheet until such time as shares are purchased. There were two stock purchases under the ESPP during the year ended December 31, 2011. Based upon the purchase price established as of March 31, 2011 and September 30, 2011, 41,346 shares were allocated under the plan in the year.

          Cash received from ESPP for the years ended December 31, 2011, 2010 and 2009 was $0.3 million, $0.4 million, and $0.5 million, respectively.

F-24

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          The breakdown of stock-based compensation expense by major line caption in the statement of operations is shown below (in thousands).
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	

	 	

	

	 	

	

	 	
Research and development	 	$	36	 	$	67	 	$	43	 	
General and administrative	 	 	30	 	 	32	 	 	129	 	

	

	 	

	

	 	

	

	 	
 	 	$	66	 	$	99	 	$	172	 	

	

	 	

	

	 	

	

	 	
(17) Income Taxes

          The components of the income tax provision related to continuing operations are summarized as follows (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	

	 	

	

	 	

	

	 	
Current:	 	 	 	 	 	 	 	 	 	 	
Federal	 	$	—	 	$	(140	)	$	(2,195	)	
State and foreign	 	 	205	 	 	(197	)	 	110	 	

	

	 	

	

	 	

	

	 	
Total current	 	 	205	 	 	(337	)	 	(2,085	)	

	

	 	

	

	 	

	

	 	
Deferred: Federal and State	 	 	—	 	 	—	 	 	—	 	

	

	 	

	

	 	

	

	 	
Income tax provision (benefit)	 	$	205	 	$	(337	)	$	(2,085	)	

	

	 	

	

	 	

	

	 	
          The following table represents a reconciliation between the reported income taxes and the income taxes that would be computed by applying the federal statutory rate (35%) to income from continuing operations before taxes (in thousands):
 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	

	

	 	

	

	 	

	

	 	
Income tax benefit computed at federal statutory rate	 	$	(7,195	)	$	(1,098	)	$	(20,750	)	
Nondeductible expenses	 	 	205	 	 	2,348	 	 	699	 	
Add (deduct) effect of:	 	 	 	 	 	 	 	 	 	 	
Federal research and development tax credits	 	 	(1,339	)	 	(2,662	)	 	(1,625	)	
Tax on earnings of foreign subsidiary	 	 	174	 	 	826	 	 	—	 	
State income taxes, net of federal tax	 	 	20	 	 	(199	)	 	71	 	
Effect of change in federal law	 	 	—	 	 	(140	)	 	(2,195	)	
Increase in beginning of period valuation allowance	 	 	8,340	 	 	588	 	 	21,715	 	

	

	 	

	

	 	

	

	 	
Income tax provision (benefit)	 	$	205	 	$	(337	)	$	(2,085	)	

	

	 	

	

	 	

	

	 	
          Income tax expense in 2011 was primarily comprised of Canadian withholding tax. No federal income tax expense was incurred in relation to normal operating results due either to current period operating losses or the utilization of deferred tax assets to offset taxes that would otherwise accrue to operating income.

          Federal legislation, the American Recovery and Reinvestment Act of 2009, which allowed the Company to make an election to treat certain unused research and alternative minimum tax credit carryforwards as refundable in lieu of claiming bonus and accelerated depreciation for “eligible qualified property” placed in service through the end of 2009 was extended to 2010. This provided the Company with a $0.1 million benefit in 2010. The balance of the 2010 income tax benefit reflects a reduction of $0.2 million to state taxes payable.

F-25

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

          In November 2009, federal legislation was enacted under which the Company was able to carry back its 2009 alternative minimum tax net operating losses to the five previous years to offset the alternative minimum taxes that were not available for carryback prior to the new legislation. The Company recorded the impact of the carryback, estimated to be approximately $1.7 million, in the fourth quarter of 2009 and received a federal income tax cash refund in the first quarter of 2010. Other legislation in 2009 allowed the Company to make an election to treat certain unused research and alternative minimum tax credit carryforwards as refundable in lieu of claiming bonus and accelerated depreciation for “eligible qualified property” placed in service through the end of 2008. This provided the Company with a $0.5 million benefit in 2009. The balance of the 2009 income tax expense reflects $0.1 million adjustment to state taxes payable.

          The gain on the sale of the specialty pharmaceutical business, although taxable, did not result in a federal income tax liability due to the tax basis the Company had in the divested assets and the net operating loss generated in 2010. The utilization of related deferred tax assets associated with the sale and corresponding reversal of valuation allowances is reflected in the table that follows.

          As of December 31, 2011 and 2010, the tax effects of temporary differences that give rise to the deferred tax assets and deferred tax liabilities are as follows (in thousands):
 	 	 	 	 	 	 	 	
 	 	December 31,
2011	 	December 31,
2010	 	

	

	 	

	

	 	
Deferred tax assets:	 	 	 	 	 	 	 	
Federal and state net operating loss carryforwards	 	$	61,213	 	$	55,510	 	
Research and development credits carryforward	 	 	27,647	 	 	26,353	 	
Acquired in-process research and development	 	 	7,512	 	 	8,411	 	
Capital loss carryforwards	 	 	3,165	 	 	3,165	 	
Share-based compensation	 	 	2,554	 	 	719	 	
Federal alternative minimum tax credits	 	 	1,530	 	 	1,530	 	
Accrued compensation	 	 	1,035	 	 	1,214	 	
Other	 	 	3,153	 	 	3,395	 	

	

	 	

	

	 	
Total gross deferred tax assets	 	 	107,809	 	 	100,296	 	
Less valuation allowance	 	 	(107,365	)	 	(97,587	)	

	

	 	

	

	 	
 	 	 	444	 	 	2,709	 	

	

	 	

	

	 	
Deferred tax liabilities:	 	 	 	 	 	 	 	
Book basis in excess of tax basis of acquired assets	 	 	(443	)	 	(1,510	)	
Undistributed earnings of foreign subsidiary	 	 	—	 	 	(826	)	
Unrealized gain on investment securities	 	 	(1	)	 	(373	)	

	

	 	

	

	 	
 	 	 	(444	)	 	(2,709	)	

	

	 	

	

	 	
Net deferred tax assets	 	$	—	 	$	—	 	

	

	 	

	

	 	
          During the year ended December 31, 2010, the Company determined that it would no longer permanently reinvest any of the earnings of its foreign subsidiaries. As a result, the Company recorded a net deferred income tax liability of $0.8 million, with an offsetting valuation allowance, on approximately $2.4 million of accumulated earnings of its foreign subsidiaries. During the year ended December 31, 2011, the Company repatriated its earnings from its foreign subsidiaries due to the closure of the operations. As a result, the Company reduced the net deferred income tax liability of $0.8 million and eliminated the offsetting valuation allowance.

          A valuation allowance is provided when it is more likely than not that some portion or all of the deferred tax assets will not be realized. At December 31, 2011, the Company had federal net operating loss carryforwards of approximately $150.3 million that expire in the years 2020 through 2031 and New Jersey state net operating loss carryforwards of approximately $95.6 million that expire in the years 2012 through 2018. The Company also has federal research and development tax credit carryforwards of approximately $20.8 million for tax reporting purposes that expire in the years 2017 through 2031. In addition, the

F-26

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Company has $6.9 million of state research and development tax credit carryforwards that expire in the years 2015 through 2026. The Company’s ability to use the net operating loss and research and development tax credit carryforwards is subject to certain limitations due to ownership changes, as defined by rules pursuant to Section 382 of the Internal Revenue Code of 1986, as amended.

          As of December 31, 2011, management believes that it is more likely than not that the net deferred tax assets will not be realized, based on assumptions regarding future operations, consideration of tax strategies and the reversal of deferred tax liabilities. As of December 31, 2011 and 2010, the Company had deferred tax assets of $107.8 million and $100.3 million, respectively. The Company has maintained a valuation allowance of $107.4 million and $97.6 million at December 31, 2011 and 2010, respectively.

          The Company files income tax returns in the U.S. federal jurisdiction, various state jurisdictions and Canada. The Company is currently not under examination by the U.S. Internal Revenue Service, however, the tax years 2008 through 2011 remain open to examination. State income tax returns for the states of New Jersey and Indiana are generally subject to examination for a period of 3-4 years after filing of the respective returns. These state income tax returns are not currently under examination. Income tax returns for Canada are generally subject to examination for a period of 3-5 years after filing of the respective return. The Company’s income tax returns are currently not under examination by Revenue Canada.

(18) Significant Agreements

Sigma-Tau Group

          The Company sold its specialty pharmaceutical business to Klee Pharmaceuticals Inc. (now known as Sigma-Tau PharmaSource, Inc.), Defiante Farmacêutica, S.A and sigma-tau Finanziaria S.p.A. (collectively, the sigma-tau Group) in January 2010. In addition to the initial sale of assets which has been reflected in the Company’s financial statements for the year ended December 31, 2010, there were certain potential future payments to Enzon that were contingent upon the achievement of stated milestones. During the first quarter of 2011, the Company earned a $5.0 million milestone payment resulting from the approval of a supplemental Biologic License Application (sBLA) for the manufacture of SS Oncaspar. Remaining potential milestone payments as of December 31, 2011 were estimated to be $17.0 million. In addition, there are royalties potentially due to Enzon of 5 to 10 percent on incremental net sales through 2014 by the sigma-tau Group above a 2009 baseline amount from the four marketed specialty pharmaceutical products Enzon sold to them. Approximately $0.5 million and $0.6 million of royalty revenue were recognized in 2011 and 2010, respectively, pursuant to this provision of the sale agreement. There can be no assurance that any of the remaining milestone payments or any future royalty revenues beyond that which has been recognized to date will accrue to the benefit of the Company.

          Also, the Company entered into a transition services agreement with sigma-tau Group whereby Enzon would perform product-support research and development for up to three years and provide various general and administrative functions for up to one year following the closing of the transaction. In consideration for this work, Enzon is being compensated based upon costs incurred plus a mark-up defined in the transition services agreement.

Santaris Pharma A/S License Agreement

          In July 2006, the Company entered into a license agreement with Santaris Pharma A/S (Santaris) pursuant to which the Company obtained exclusive rights worldwide, other than in Europe, to develop and commercialize RNA antagonists directed against the HIF-1α and Survivin mRNA, as well as RNA antagonists directed against six additional gene targets selected by the Company. Since inception of the agreement, initial acquisition of in-process research and development and milestone payments have been made totaling $34.0 million, including milestone payments of $0.0 million, $7.0 million, and $3.0 million in 2011, 2010, and 2009, respectively, included in research and development expense in the accompanying statements of operations. The Company could pay an additional $142.0 million in milestone payments upon the successful completion of certain development and regulatory milestones. If the Company fails to make the requisite milestone payment for any particular target, Santaris has the right to recover that target for its own purposes. Santaris also is eligible to receive single-digit percentage royalties from any future product sales from products based on the licensed antagonists. Santaris retains the right to develop and commercialize products developed under the agreement in Europe. The royalty term expires on a country-by-country and product-by-product basis when the last valid LNA platform patent or LNA compound patent expires not to exceed 21 years with respect to any product.

F-27

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

Merck Agreement

          As a result of a November 1990 agreement, the Company’s PEGylation technology was used to develop an improved version of the product INTRON A, PEGINTRON. Merck is responsible for marketing and manufacturing PEGINTRON on an exclusive worldwide basis and the Company receives royalties on worldwide sales of PEGINTRON for all indications. The Company has no involvement in the selling or marketing of PEGINTRON. Merck’s obligation to pay the Company royalties on sales of PEGINTRON terminates, on a country-by-country basis, upon the later of the date on which the last patent to contain a claim covering PEGINTRON expires in the country or 15 years after the first commercial sale of PEGINTRON in such country. Currently, expirations are expected to occur in 2016 in the U.S., 2018 in Europe and 2019 in Japan. The royalty percentage to which the Company is entitled will be lower in any country where a PEGylated alpha-interferon product is being marketed by a third party in competition with PEGINTRON where such third party is not Hoffmann-La Roche. Either party may terminate the agreement upon a material breach of the agreement by the other party that is not cured within 60 days of written notice from the non-breaching party or upon declaration of bankruptcy by the other party. During the quarter ended September 30, 2007, the Company sold a 25-percent interest in future royalties payable to it by Merck on net sales of PEGINTRON occurring after June 30, 2007.

Nektar Agreement

          In January 2002, the Company entered into a PEGylation technology licensing agreement with Nektar under which the Company granted Nektar the right to grant sub-licenses for a portion of its patents related to its PEGylation technology to third-parties. Nektar had the right to sub-license Enzon’s patents that were defined in the January 2002 agreement and the Company will receive a royalty or a share of Nektar’s profits for any products that utilize the Company’s patented PEGylation technology. The Company’s receipt of royalties related to Nektar licenses will end in 2014. Effective in January 2007, Nektar’s right to grant additional sublicenses was limited to a certain class of our PEGylation technology. Existing sublicenses granted by Nektar prior to January 2007 were unaffected.

(19) Commitments and Contingent Liabilities

          The Company has employment and separation agreements with certain members of its management that provide for severance payments and payments following a termination of employment occurring for various reasons, including a change in control of the Company.

          The Company has been involved in various claims and legal actions arising in the ordinary course of business. In the opinion of management, the ultimate disposition of these matters will not have a material effect on the Company’s consolidated financial position, results of operations, or liquidity.

          The Company has non-cancelable lease obligations for certain office and production facilities that have been vacated and sublet. During the third quarter of 2011, the Company terminated the lease for the third floor of the former Bridgewater, New Jersey headquarters facility. During the fourth quarter of 2011, the Company terminated the lease for the first floor of the same facility.

F-28

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(20) Leases

          The Company has several leases for office, warehouse, production and research facilities and equipment. The non-cancelable lease terms for the operating leases expire at various dates between 2012 and 2021 and each agreement includes renewal options.

          Future minimum lease payments, for non-cancelable operating leases with initial or remaining lease terms in excess of one year as of December 31, 2011 are as follows (in thousands):
 	 	 	 	 	 	
Year ending December 31,	 	 	Operating
Leases	 	

	 	 	

	 	
2012	 	$	1,408	 	
2013	 	 	753	 	
2014	 	 	703	 	
2015	 	 	703	 	
2016	 	 	703	 	
Thereafter	 	 	3,514	 	

	

	 	
Total minimum lease payments	 	$	7,784	 	

	

	 	
          Minimum payments indicated above have not been reduced by future minimum rentals to be received under noncancelable subleases of approximately $0.2 million to be received in equal monthly installments through October 2012 nor approximately $0.4 million to be received in equal monthly installments through January 2013.

          Rent expense amounted to $1.6 million, $2.6 million, and $2.4 million for the years ended December 31, 2011, 2010 and 2009, respectively. Total rent expense, inclusive of scheduled increases and rent holidays, is recognized on a straight-line basis over the term of the lease.

          The Company’s use of leased office space at its former Bridgewater, New Jersey headquarters facility ended during the first quarter of 2011. As previously discussed, the Company terminated the third and first floor portions of the leased space during the third and fourth quarters of 2011, respectively. The second floor portion of the leased space has been sublet at a rate lower than the Company’s committed costs for that space. The lease related to this portion of the total leased facilities expires on January 31, 2013. The Company remains as the primary lessee with remaining rental payments, in the aggregate, amounting to $0.6 million and extending until January 31, 2013. No other costs related to termination of the lease or restoration of the facilities are anticipated.

          The Company’s use of the leased South Plainfield production facility has ended. While the Company continues to be obligated under the original lease for the facility, a sublease was entered into in January 2010 on favorable terms such that no liability needs to be accrued. The Company may incur charges associated with the lease or its termination prior to or upon the contractual expiration of the lease in October 2012; however, such exposure, if any, cannot be estimated at this time.

F-29

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(21) Retirement Plans

          The Company maintains a defined contribution 401(k) pension plan for substantially all of its full-time and part-time employees, as defined. The Company currently matches 50 percent of the employee’s contribution of up to 6 percent of compensation, as defined. The total Company contributions for the years ended December 31, 2011, 2010, and 2009, were $0.4 million, $0.7 million, and $1.0 million, respectively.

          In September 2011, the Board of Directors authorized and directed the Compensation Committee to terminate the Company’s Executive Deferred Compensation Plan. As required by Section 409A of the Internal Revenue Code, participants in the Plan will receive a payout of their accounts no earlier than 12 months after the termination of the Plan and no later than 24 months after such date. At December 31, 2011, $2.5 million of deferred compensation was included in other current liabilities. At December 31, 2010, $3.1 million of deferred compensation was included in other long-term liabilities. See Note 4, Marketable Securities relating to the investment of participants’ assets.

(22) Discontinued Operations

           On January 29, 2010, the Company consummated the sale to the Sigma-Tau Group of the specialty pharmaceutical business, comprised principally of the Company’s Products and Contract Manufacturing segments, in addition to certain in-process research and development. The Products and Contract Manufacturing segments constituted components of Enzon and qualified for treatment as discontinued operations upon consummation of the transaction. In-process research and development, which comprised part of the total transaction, did not constitute a component of Enzon and, accordingly, was treated as an asset sale and not as discontinued operations.

Terms of Sale

          The asset purchase agreement for the sale of the specialty pharmaceutical business contained the following major provisions. Updated status regarding each element is also provided.
Cash purchase price was $300.0 million, subject to certain customary working capital adjustments.

          The cash proceeds received, including the second-quarter 2010 working capital adjustment, amounted to approximately $308.0 million. Transaction costs amounted to approximately $5.0 million reducing net proceeds to approximately $303.0 million. Of this amount, $40.9 million was allocated to the sale of in-process research and development (see Note 9 above). The net proceeds then attributable to discontinued operations amounted to $262.6 million and this amount less the book basis in the respective assets and liabilities (see below) yielded the gain from discontinued operations of $176.4 million.
Up to $27.0 million based on certain success milestones.

           During January 2011, the Company received notice that one of the milestones – the approval of an sBLA regarding a new API starting material for the manufacture of SS Oncaspar - was reached, resulting in Enzon being entitled to receive and recognize $5.0 million of milestone income in 2011. During the latter half of 2010, circumstances emerged making it unlikely that another of the milestones related to an expedited approval process in Europe would be achieved. This would have resulted in a $5.0 million payment to Enzon. Of the remaining $17.0 million of potential milestone payments, it is very unlikely that any will be received in 2012 and there can be no assurance that the Company will receive any such payments in the future.

          The receipt of milestone payments does not constitute continuing cash flows of the divested business. These payments are not contingent upon Enzon performing the research or development activity. Enzon would be entitled to receive the payments if the buyer utilized another research and development provider.

F-30

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)
Royalties of 5 to 10 percent on incremental net sales above a 2009 baseline amount from what had been Enzon’s four marketed specialty pharmaceutical products through 2014 .

          Sales of the four products during 2011 and 2010 outside the U.S. were sufficiently in excess of 2009 baseline amounts to enable Enzon to earn and recognize a nominal amount of royalty revenue related to this agreement. There can be no assurance that the Company will receive any additional royalty payments pursuant to this agreement.

          These royalties do not constitute a migration or continuation by Enzon of the activities that generate the payments. Enzon is no longer engaged in any manufacturing or marketing activities. Consequently, these cash flows are deemed to be indirect in nature.
Transition services agreement - Enzon has performed product-support research and development and has provided various general and administrative functions for the purchasing parties during 2010 and 2011. In consideration for this work, Enzon is being compensated based upon costs incurred plus a mark-up defined in the transition services agreement.

          Revenues from and associated costs related to research and development transition services are reflected in the statements of operations as contract research and development and research and development – specialty and contracted services, respectively. Transition services revenues related to general and administrative efforts are reported in miscellaneous income and the associated costs are shown as general and administrative – contracted services. As of December 31, 2011, the Company’s involvement in general and administrative support efforts has essentially been concluded. Some diminishing level of research and development support will continue into 2012.

          The cash flows related to the transition services being provided to the buyer in connection with research and development activities represent a continuation of Enzon’s corporate research function. However, the cost-plus arrangement did not generate sufficient net cash flows during 2011 to be considered significant. These cash flows will be substantially lower in 2012. The services are performed at the request of the sigma-tau Group as a convenience to them. The services could have been performed by others.

Discontinued Operations Accounting Treatment

          While the sale of the specialty pharmaceutical business was initiated in November 2009, the assets were not considered to be held for sale as of December 31, 2009 due to the fact that the transaction was subject to shareholder approval. Such approval was obtained at a special meeting of shareholders on January 27, 2010. As a result, discontinued operations treatment began in the first quarter of 2010 for the Products and Contract Manufacturing segments whereby results of discontinued operations and net assets and liabilities are reported separately in the statements of operations and cash flows. The sale of in-process research and development associated with marketed products was treated as an asset sale and was not part of discontinued operations for accounting purposes due to the Company’s significant continuing involvement in research and development related to marketed products subsequent to the sale.
Assets and liabilities acquired by the Purchasing Parties include:
ownership of the four marketed products, Oncaspar, Adagen, Abelcet and DepoCyt and all related rights;
real estate, personal property and equipment of the business used in the manufacture of products and performance of the contract manufacturing operations, including the manufacturing facility in Indianapolis;
working capital, including accounts receivable, inventories, accounts payable and other prepaids and accruals;
patents, trademarks, copyrights and other intangible properties related to the products and product-specific assets;

F-31

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)
in-process research and development related to the sourcing of Oncaspar and Adagen; and
other assets and liabilities as specified in the asset purchase agreement.
Assets and liabilities excluded from the sale of the specialty pharmaceutical business include:
cash and cash equivalents;
tax refunds and tax attributes related to assets, liabilities and past operations;
royalties business with the exception of one contract related to Oncaspar;
PEG-SN38 and Enzon’s LNA compounds and PEG technology platform;
4% convertible senior notes due 2013;
stock compensation arrangements;
product claims, product return claims, environmental and tax liabilities arising prior to the closing date in excess of any reserves;
lease related to South Plainfield, New Jersey facility; and
other assets and liabilities as specified in the asset purchase agreement.

           Summary results of operations of the specialty pharmaceutical business through January 29, 2010 and for the year ended December 31, 2009 were as follows (in thousands):
 	 	 	 	 	 	 	 	
 	 	January 1, 2010
through
January 29, 2010	 	December 31,
2009	 	

	 	

	 	
Revenues	 	$	8,720	 	$	133,213	 	

	

	 	

	

	 	
Income before income tax	 	$	3,620	 	$	57,661	 	
Income tax benefit (provision)	 	 	—	 	 	224	 	
Gain on sale of discontinued operations, net of income tax, as adjusted	 	 	176,423	 	 	—	 	

	

	 	

	

	 	
Income and gain from discontinued operations, net of income tax, as adjusted	 	$	180,043	 	$	57,885	 	

	

	 	

	

	 	
          The sale was a taxable transaction for federal income tax purposes. The Company did not, however, incur significant tax liabilities as a result of the transaction due to the tax basis it has in the disposed of assets and the current year net operating loss. The potential receipt of milestone and/or royalty payments will also be taxable events, but the tax consequences of these payments cannot be estimated at this time.

          The carrying amounts of major classes of assets and liabilities of the specialty pharmaceutical business were as follows (in thousands):
 	 	 	 	 	
 	 	January 29,	 	
 	 	2010	 	

	 	
Trade accounts receivable, net	 	$	11,886	 	
Inventories	 	 	19,516	 	
Other current assets	 	 	693	 	

	

	 	
Current assets of discontinued operations	 	$	32,095	 	

	

	 	
Property and equipment, net	 	$	12,621	 	
Amortizable intangible assets, net	 	 	48,896	 	

	

	 	
Non-current assets of discontinued operations	 	$	61,517	 	

	

	 	
Trade accounts payable	 	$	700	 	
Accrued expenses	 	 	5,763	 	

	

	 	
Liabilities of discontinued operations	 	$	6,463	 	

	

	 	
F-32

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(23) Quarterly Results of Operations (Unaudited)

          The following tables present summarized unaudited quarterly financial data (in thousands, except per-share amounts):
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Three Months Ended	 	

	 	
 	 	March 31,
2011	 	June 30,
2011	 	September 30,
2011	 	December 31,
2011	 	

	 	

	 	

	 	

	 	
Total revenues (1)	 	$	18,022	 	$	9,599	 	$	10,440	 	$	10,011	 	
Income (loss) from continuing operations	 	 	431	 	 	(7,068	)	 	(9,105	)	 	(5,021	)	
Net income (loss)	 	$	431	 	$	(7,068	)	$	(9,105	)	$	(5,021	)	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Per-share information:	 	 	 	 	 	 	 	 	 	 	 	 	 	
Income (loss) from continuing operations:	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic and diluted	 	$	0.01	 	$	(0.13	)	$	(0.19	)	$	(0.10	)	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net income (loss):	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic and diluted	 	$	0.01	 	$	(0.13	)	$	(0.19	)	$	(0.10	)	

 	 	Three Months Ended	 	

	 	
 	 	March 31,
2010	 	June 30,
2010	 	September 30,
2010	 	December 31,
2010	 	

	 	

	 	

	 	

	 	
Total revenues (1)	 	$	58,253	 	$	13,766	 	$	13,328	 	$	12,518	 	
Income (loss) from continuing operations	 	 	20,754	 	 	(5,571	)	 	(8,354	)	 	(9,629	)	
Income and gain from discontinued operations	 	 	179,053	 	 	(51	)	 	—	 	 	1,041	(3)	
Net income (loss)(2)	 	$	199,807	 	$	(5,622	)	$	(8,354	)	$	(8,588	)(3)(4)	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Per-share information:	 	 	 	 	 	 	 	 	 	 	 	 	 	
Income (loss) from continuing operations:	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic	 	$	0.40	 	$	(0.09	)	$	(0.14	)	$	(0.16	)	
Diluted	 	$	0.29	 	$	(0.09	)	$	(0.14	)	$	(0.16	)	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Net income (loss):	 	 	 	 	 	 	 	 	 	 	 	 	 	
Basic	 	$	3.82	 	$	(0.09	)	$	(0.14	)	$	(0.14	)	
Diluted	 	$	2.70	 	$	(0.09	)	$	(0.14	)	$	(0.14	)	
(1) Revenues are primarily royalties received on the sale of products by other companies utilizing Enzon’s Customized Linker Technology. First quarter 2011 and 2010 revenues include $5.0 million and $40.9 million, respectively, related to the sale of in-process research and development. Revenues from services in 2011 and 2010 are not material. Subsequent to the January 2010 sale of the specialty pharmaceutical business (reflected as discontinued operations), the Company is no longer involved in the manufacture and sale of products.

(2) As previously reported through September 30, 2010.

(3) The gain on the sale of the specialty pharmaceutical business was adjusted during the fourth quarter 2010 by $1.0 million to reflect the write-off of accumulated currency translation gains related to the Canadian subsidiary. This changed the previously reported income and gain from discontinued operations to $180.0 million or $3.08 per share versus the $179.0 million or $3.06 per share previously reported. Because the sale of substantially all of the net assets of the Canadian subsidiary constituted a substantial liquidation for accounting purposes, the accumulated currency translation adjustment should have been reported in earnings as part of the gain calculation during the first quarter of 2010. The fourth quarter correcting entry was not material to the first or fourth quarters nor to the full year 2010 results of operations.

F-33

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
NOTES TO CONSOLIDATED FINANCIAL STATEMENTS (CONTINUED)

(4) Included in the fourth-quarter 2010 results is a correction of the accounting for the first-quarter 2010 conversion of a portion of the Company’s 4% notes. The net effect of the forgone interest and the write-off of a pro rata amount of deferred debt issuance costs amounted to $0.8 million and was charged to earnings during the first quarter of 2010 at the time of the notes conversion. The correcting adjustment was to credit interest expense for the $0.8 million and to charge additional paid-in capital reflective of the capital nature of the transaction. The noncash correcting entry was not material to the first or fourth quarters nor to the full year 2010 results of operations. See Note 6, Notes Payable.

          In the fourth quarter of 2010, the Company recognized a federal government Qualifying Therapeutic Discovery Project grant in the amount of $1.2 million and royalty revenues in the amount of approximately $0.6 million related to 2010 sales of divested products in excess of baseline 2009 levels. Also in the fourth quarter of 2010, the Company recognized a $3.0 million restructuring charge related to a workforce reduction affecting 33 employees. See Notes 10, Contract Research and Development Revenue and Miscellaneous Income; 13, Restructuring and 22, Discontinued Operations.

          During the fourth quarter of 2010, the Company determined that it would no longer permanently reinvest any of the earnings of its foreign subsidiaries. As a result, the Company recorded a net deferred income tax liability of $0.8 million on approximately $2.4 million of accumulated earnings of its foreign subsidiaries with an offsetting valuation allowance. See Note 17, Income Taxes.

(24) Subsequent Events

          In January 2012, the Company repurchased $3.75 million principal amount of its 4% notes above par and recorded approximately $0.1 million loss on early retirement of debt.

F-34

EXHIBIT 12.1

ENZON PHARMACEUTICALS, INC. AND SUBSIDIARIES
Ratio of Earnings to Fixed Charges
(in thousands)
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
 	 	Year Ended December 31,	 	

	 	
 	 	2011	 	2010	 	2009	 	2008	 	2007	 	

	 	

	 	

	 	

	 	

	 	
Determination of earnings:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
(Loss) income from continuing operations before income taxes	 	$	(20,558	)	$	(3,137	)	$	(59,287	)	$	(46,312	)	$	60,271	 	
Add:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Fixed Charges	 	 	6,441	 	 	7,159	 	 	12,300	 	 	13,450	 	 	18,131	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Earnings, as adjusted	 	$	(14,117	)	$	4,022	 	$	(46,987	)	$	(32,862	)	$	78,402	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Fixed charges:	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Interest expense (gross)(1)	 	$	5,929	 	$	6,315	 	$	11,514	 	$	12,681	 	$	17,380	 	
Portion of rent representative of the interest factor(2)	 	 	512	 	 	844	 	 	786	 	 	769	 	 	751	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
Fixed charges	 	$	6,441	 	$	7,159	 	$	12,300	 	$	13,450	 	$	18,131	 	

	

	 	

	

	 	

	

	 	

	

	 	

	

	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Deficiency of earnings available to cover fixed charges	 	$	(20,558	)	$	(3,137	)	$	(59,287	)	$	(46,312	)	 	N/A	 	
 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	 	
Ratio of earnings to fixed charges	 	 	N/A	 	 	N/A	 	 	N/A	 	 	N/A	 	 	4:1	 	

 	(1)	Interest expense includes amortization of deferred issuance costs of $0.6 million, $0.6 million, $1.0 million, $1.1 million, and $1.6 million for the years ended December 31, 2011, 2010, 2009, 2008, and 2007, respectively.	
 	(2)	Approximately 33 percent of annual rent expense is included in the computation. The Company believes this is a reasonable estimate of the interest factor in its leases, which are not material. The underlying rent amounts were $1.6 million, $2.6 million, $2.4 million, $2.3 million, and $2.3 million for the years ended December 31, 2011, 2010, 2009, 2008, and 2007, respectively.	

EXHIBIT 21.1

ENZON PHARMACEUTICALS, INC.
 	 	 	
Subsidiaries of Registrant	
 	 	 	
Subsidiary	 	State or Other Jurisdiction of Incorporation	

	 	

	
 	 	 	
SCA Ventures, Inc.	 	Delaware	
Enzon Pharmaceuticals, Ltd.	 	Canada	
Evivrus, Inc.	 	Delaware	
Enzon (UK) Limited	 	United Kingdom	

EXHIBIT 23.1

Consent of Independent Registered Public Accounting Firm

The Board of Directors
Enzon Pharmaceuticals, Inc.:

          We consent to the incorporation by reference in the registration statements (Nos. 333-101898, 333-64110, 333-18051, 333-121468, 333-140282, 333-134453, and 333-132467) on Form S-8 and in the registration statement (No. 333-137723) on Form S-3 of Enzon Pharmaceuticals, Inc. of our reports dated March 12, 2012, with respect to the consolidated balance sheets of Enzon Pharmaceuticals, Inc. and subsidiaries as of December 31, 2011 and 2010, and the related consolidated statements of operations, stockholders’ equity, and cash flows for each of the years in the three-year period ended December 31, 2011 and the effectiveness of internal control over financial reporting as of December 31, 2011, which reports appear in the December 31, 2011 Annual Report on Form 10-K of Enzon Pharmaceuticals, Inc.

/s/ KPMG LLP

Short Hills, New Jersey
March 12, 2012

EXHIBIT 31.1

CERTIFICATION PURSUANT TO
SECTION 302 OF
THE SARBANES-OXLEY ACT OF 2002

I, Ana I. Stancic, certify that:
 	 	 	 	
 	1.	I have reviewed this Annual Report on Form 10-K of Enzon Pharmaceuticals, Inc.;	
 	 	 	
 	2.	Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to make the statements made, in light of the circumstances under which such statements were made, not misleading with respect to the period covered by this report;	
 	 	 	
 	3.	Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;	
 	 	 	
 	4.	The registrant’s other certifying officer and I are responsible for establishing and maintaining disclosure controls and procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-15(f) and 15d-15(f)) for the registrant and have:	
 	 	 	
 	 	(a)	designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others within those entities, particularly during the period in which this report is being prepared;	
 	 	 	 	
 	 	(b)	designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles;	
 	 	 	 	
 	 	(c)	evaluated the effectiveness of the registrant’s disclosure controls and procedures and presented in this report our conclusions about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and	
 	 	 	 	
 	 	(d)	disclosed in this report any change in the registrant’s internal control over financial reporting that occurred during the registrant’s most recent fiscal quarter (the registrant’s fourth fiscal quarter in the case of an annual report) that has materially affected, or is reasonably likely to materially affect, the registrant’s internal control over financial reporting; and	
 	 	 	 	
 	5.	The registrant’s other certifying officer and I have disclosed, based on our most recent evaluation of internal control over financial reporting, to the registrant’s auditors and the audit committee of the registrant’s board of directors (or persons performing the equivalent functions):	
 	 	 	
 	 	(a)	All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which are reasonably likely to adversely affect the registrant’s ability to record, process, summarize and report financial information; and	

 	 	 	 	
 	 	(b)	Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant’s internal control over financial reporting.	

March 12, 2012	/s/Ana I. Stancic	

	
 	Ana I. Stancic	
 	Principal Executive Officer,	
 	Executive Vice President,	
 	Chief Operating Officer and	
 	Chief Financial Officer	

EXHIBIT 31.2

CERTIFICATION PURSUANT TO
SECTION 302 OF
THE SARBANES-OXLEY ACT OF 2002

I, Timothy G. Daly, certify that:
 	 	 	 	
 	1.	I have reviewed this Annual Report on Form 10-K of Enzon Pharmaceuticals, Inc.;	
 	 	 	
 	2.	Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to make the statements made, in light of the circumstances under which such statements were made, not misleading with respect to the period covered by this report;	
 	 	 	 	
 	3.	Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;	
 	 	 	
 	4.	The registrant’s other certifying officer and I are responsible for establishing and maintaining disclosure controls and procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-15(f) and 15d-15(f)) for the registrant and have:	
 	 	 	
 	 	(a)	designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others within those entities, particularly during the period in which this report is being prepared;	
 	 	 	 	
 	 	(b)	designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles;	
 	 	 	 	
 	 	(c)	evaluated the effectiveness of the registrant’s disclosure controls and procedures and presented in this report our conclusions about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and	
 	 	 	 	
 	 	(d)	disclosed in this report any change in the registrant’s internal control over financial reporting that occurred during the registrant’s most recent fiscal quarter (the registrant’s fourth fiscal quarter in the case of an annual report) that has materially affected, or is reasonably likely to materially affect, the registrant’s internal control over financial reporting; and	
 	 	 	 	
 	5.	The registrant’s other certifying officer and I have disclosed, based on our most recent evaluation of internal control over financial reporting, to the registrant’s auditors and the audit committee of the registrant’s board of directors (or persons performing the equivalent functions):	
 	 	 	
 	 	(a)	All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which are reasonably likely to adversely affect the registrant’s ability to record, process, summarize and report financial information; and	

 	 	 	
 	(b)	Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant’s internal control over financial reporting.	

March 12, 2012	/s/Timothy G. Daly	

	
 	Timothy G. Daly	
 	Vice President, Controller and	
 	Chief Accounting Officer
(Principal Financial Officer)	

EXHIBIT 32.1

CERTIFICATION PURSUANT
TO 18 U.S.C. §1350,
AS ADOPTED PURSUANT TO
SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

          In connection with the Annual Report of Enzon Pharmaceuticals, Inc. (the Company) on Form 10-K for the year ended December 31, 2011 as filed with the Securities and Exchange Commission on the date hereof (the Report), I, Ana I. Stancic, Executive Vice President, Chief Operating Officer and Chief Financial Officer of the Company, certify, pursuant to 18 U.S.C. Section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002, that to my knowledge:
 	 	 	
 	1.	The Report fully complies with the requirements of Section 13(a) or 15(d) of the Securities Exchange Act of 1934; and	
 	 	 	
 	2.	The information contained in the Report fairly presents, in all material respects, the financial condition and results of operations of the Company.	

March 12, 2012	/s/Ana I. Stancic	

	
 	Ana I. Stancic	
 	Principal Executive Officer,	
 	Executive Vice President,	
 	Chief Operating Officer and	
 	Chief Financial Officer	
A signed original of this written statement required by Section 906 of the Sarbanes-Oxley Act of 2002 has been provided to Enzon Pharmaceuticals, Inc. and will be furnished to the Securities Exchange Commission or its staff upon request.

EXHIBIT 32.2

CERTIFICATION PURSUANT TO
18 U.S.C. §1350,
AS ADOPTED PURSUANT TO
SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

          In connection with the Annual Report of Enzon Pharmaceuticals, Inc. (the Company) on Form 10-K for the year ended December 31, 2011 as filed with the Securities and Exchange Commission on the date hereof (the Report), I, Timothy G. Daly, Vice President, Controller and Chief Accounting Officer of the Company, certify, pursuant to 18 U.S.C. Section 1350, as adopted pursuant to Section 906 of the Sarbanes-Oxley Act of 2002, that to my knowledge:
 	 	 	
 	1.	The Report fully complies with the requirements of Section 13(a) or 15(d) of the Securities Exchange Act of 1934; and	
 	 	 	
 	2.	The information contained in the Report fairly presents, in all material respects, the financial condition and results of operations of the Company.	

March 12, 2012	/s/Timothy G. Daly	

	
 	Timothy G. Daly	
 	Vice President, Controller and	
 	Chief Accounting Officer	
 	(Principal Financial Officer)	
          A signed original of this written statement required by Section 906 of the Sarbanes-Oxley Act of 2002 has been provided to Enzon Pharmaceuticals, Inc. and will be furnished to the Securities Exchange Commission or its staff upon request.