0001144204-13-061913.txt : 20131114 0001144204-13-061913.hdr.sgml : 20131114 20131114162850 ACCESSION NUMBER: 0001144204-13-061913 CONFORMED SUBMISSION TYPE: 13F-HR PUBLIC DOCUMENT COUNT: 2 CONFORMED PERIOD OF REPORT: 20130930 FILED AS OF DATE: 20131114 DATE AS OF CHANGE: 20131114 EFFECTIVENESS DATE: 20131114 FILER: COMPANY DATA: COMPANY CONFORMED NAME: BAKER BROS. ADVISORS LP CENTRAL INDEX KEY: 0001263508 IRS NUMBER: 134093645 STATE OF INCORPORATION: DE FISCAL YEAR END: 1231 FILING VALUES: FORM TYPE: 13F-HR SEC ACT: 1934 Act SEC FILE NUMBER: 028-10519 FILM NUMBER: 131220590 BUSINESS ADDRESS: STREET 1: 667 MADISON AVE STREET 2: 21ST FLOOR CITY: NEW YORK STATE: NY ZIP: 10065 BUSINESS PHONE: 2123395600 MAIL ADDRESS: STREET 1: 667 MADISON AVE STREET 2: 21ST FLOOR CITY: NEW YORK STATE: NY ZIP: 10065 FORMER COMPANY: FORMER CONFORMED NAME: BAKER BROS ADVISORS LLC DATE OF NAME CHANGE: 20030911 13F-HR 1 primary_doc.xml 13F-HR LIVE false false false 0001263508 XXXXXXXX 09-30-2013 09-30-2013 false BAKER BROS. ADVISORS LP

667 Madison Ave 21st Floor New York NY 10065

13F HOLDINGS REPORT 028-10519 N Leo Kirby 212-339-5633 /s/ Leo Kirby New York NY 11-13-2013 0 82 7035994 INFORMATION TABLE 2 infotable.xml Acadia Pharmaceuticals Inc. COM 004225108 548167 19955126 SH SOLE 19955126 0 0 Achillion COM 00448Q201 1374 455000 SH SOLE 455000 0 0 Aegerion Pharmaceuticals COM 00767E102 70339 820275 SH SOLE 820275 0 0 Agios Pharmaceuticals COM 00847X104 5592 200000 SH SOLE 200000 0 0 Ambit Biosciences Corp. COM 02318X100 11593 747962 SH SOLE 747962 0 0 Amicus Therapeutics COM 03152W109 1195 515072 SH SOLE 515072 0 0 Anacor Pharmaceuticals COM 32420101 9308 876463 SH SOLE 876463 0 0 Ariad Pharmaceuticals Inc. COM 04033A100 24540 1333703 SH SOLE 1333703 0 0 Array Biopharma Inc. COM 04269X105 9330 1500000 SH SOLE 1500000 0 0 Arrowhead Research Corp. COM 042797209 17867 3140000 SH SOLE 3140000 0 0 Avanir Pharmaceuticals COM 05348P401 18733 4428591 SH SOLE 4428591 0 0 Biocryst Pharmaceuticals Inc. COM 09058V103 48776 6699979 SH SOLE 6699979 0 0 BioDelivery Sciences Intl. Inc. COM 09060J106 4594 846005 SH SOLE 846005 0 0 Biomarin Pharmaceuticals COM 09061G101 56532 783311 SH SOLE 783311 0 0 Bluebird Bio Inc. COM 09609G100 3007 111521 SH SOLE 111521 0 0 Cerus COM 157085101 56820 8455306 SH SOLE 8455306 0 0 Chelsea Therapeutics COM 163428105 17326 5794753 SH SOLE 5794753 0 0 Chemocentryx Inc. COM 16383L106 1112 200000 SH SOLE 200000 0 0 Clovis Oncology COM 189464100 18346 301744 SH SOLE 301744 0 0 Cyclacel Pharmaceuticals Pfd. Conv. Ex 6% PFD CONV EX 23254L207 177 20979 SH SOLE 20979 0 0 Cubist Pharmaceuticals Inc. COM 229678107 318 5000 SH SOLE 5000 0 0 Derma Sciences COM 249827502 31679 2558857 SH SOLE 2558857 0 0 Discovery Laboratories Inc. COM 254668403 2976 1518617 SH SOLE 1518617 0 0 Enanta Pharmaceuticals COM 29251M106 2865 125000 SH SOLE 125000 0 0 Epizyme Inc. COM 29428V104 800 20000 SH SOLE 20000 0 0 Genomic Health Inc. COM 37244C101 417442 13650835 SH SOLE 13650835 0 0 Geron Corp. COM 374163103 3350 1000000 SH SOLE 1000000 0 0 Gilead Sciences Inc. COM 375558103 78323 1245800 SH SOLE 1245800 0 0 Halozyme Therapeutics Inc. COM 40637H109 77474 7017608 SH SOLE 7017608 0 0 Idera Pharmaceuticals Inc. COM 45168K306 10205 5865000 SH SOLE 5865000 0 0 Incyte Corp. COM 45337C102 565023 14810559 SH SOLE 14810559 0 0 Infinity Pharmaceuticals Inc. COM 45665G303 10230 586936 SH SOLE 586936 0 0 Insmed Inc. COM 457669307 14764 945803 SH SOLE 945803 0 0 Intercept Pharmaceuticals, Inc. COM 45845P108 25047 362847 SH SOLE 362847 0 0 Ironwood Pharmaceuticals COM 46333X108 5460 461160 SH SOLE 461160 0 0 Isis Pharmaceuticals COM 464330109 9274 247036 SH SOLE 247036 0 0 Kythera Biopharmaceuticals COM 501570105 12081 265000 SH SOLE 265000 0 0 Ligand Pharmaceuticals Inc. CLASS B 53220K207 3177 73400 SH SOLE 73400 0 0 Medivation Inc. COM 58501N101 23876 398331 SH SOLE 398331 0 0 MEI Pharma, Inc. COM 55279B103 3885 345317 SH SOLE 345317 0 0 Mirati Therapeutics Inc. COM 60468T105 29998 1980074 SH SOLE 1980074 0 0 Novavax COM 670002104 5408 1716913 SH SOLE 1716913 0 0 Omeros Corp COM 682143102 5932 608404 SH SOLE 608404 0 0 Orasure Technologies Inc. COM 68554V108 1463 243467 SH SOLE 243467 0 0 Osiris Therapeutics Inc. COM 68827R108 6245 375282 SH SOLE 375282 0 0 Pharmacyclics Inc. COM 716933106 1245752 9010211 SH SOLE 9010211 0 0 Portola Pharmaceuticals, Inc. COM 737010108 8023 299911 SH SOLE 299911 0 0 Progenics Pharmaceuticals, Inc. COM 743187106 21084 4200000 SH SOLE 4200000 0 0 Prothena Corp. PLC COM G72800108 7478 369650 SH SOLE 369650 0 0 Puma Biotechnology COM 74587V107 5366 100000 SH SOLE 100000 0 0 QLT, Inc. COM 746927102 7111 1535863 SH SOLE 1535863 0 0 Questcor Pharmaceuticals, Inc. COM 74835Y101 31659 545846 SH SOLE 545846 0 0 Receptos Inc. COM 756207106 2597 100000 SH SOLE 100000 0 0 Repros Therapeutics COM 76028H209 74468 2778654 SH SOLE 2778654 0 0 Rigel Pharmaceuticals COM 766559603 1790 500000 SH SOLE 500000 0 0 Salix Pharmaceuticals, Inc. COM 795435106 242 3621 SH SOLE 3621 0 0 Sangamo COM 800677106 1854 176707 SH SOLE 176707 0 0 Seattle Genetics Inc. COM 812578102 846925 19322947 SH SOLE 19322947 0 0 Stemline Therapeutics Inc. COM 85858C107 36255 800400 SH SOLE 800400 0 0 Synageva Biopharma Corp. COM 87159A103 651238 10273182 SH SOLE 10273182 0 0 Synergy Pharmaceuticals COM 871639308 11920 2608271 SH SOLE 2608271 0 0 Synta Pharmaceuticals COM 87162T206 3155 500000 SH SOLE 500000 0 0 Targacept COM 87611R306 10984 2068186 SH SOLE 2068186 0 0 Tesaro Inc. COM 881569107 1209 31218 SH SOLE 31218 0 0 TG Therapeutics COM 88322Q108 3024 600000 SH SOLE 600000 0 0 Threshold Pharma COM 885807206 8614 1852399 SH SOLE 1852399 0 0 United Therapeutics Corp. COM 91307C102 4414 55984 SH SOLE 55984 0 0 Vanda Pharmaceuticals, Inc. COM 921659108 52463 4791179 SH SOLE 4791179 0 0 Ventrus Biosciences, Inc. COM 922822101 3514 1215840 SH SOLE 1215840 0 0 Viropharma Inc. COM 928241108 219551 5592239 SH SOLE 5592239 0 0 Xenoport COM 98411C100 5874 1034112 SH SOLE 1034112 0 0 Xoma Corp. COM 98419J107 103415 23032372 SH SOLE 23032372 0 0 Ziopharm Oncology Inc. COM 98973P101 1002 254199 SH SOLE 254199 0 0 Zogenix, Inc. COM 98978L105 3704 2001000 SH SOLE 2001000 0 0 Auxilium 1.5% 7/15/2018 CONV BONDS 05334DAA5 90247 87090000 PRN SOLE 87090000 0 0 Biomarin Pharmaceuticals Notes 1.875% 4/23/2017 CONV BONDS 09061GAD3 82032 22898000 PRN SOLE 22898000 0 0 Gilead 1.625% 5/1/16 CONV BONDS 375558AP8 59528 21500000 PRN SOLE 21500000 0 0 Incyte Genomics Notes 4.75% 10/1/2015 CONV BONDS 45337CAH5 688121 157758000 PRN SOLE 157758000 0 0 Intermune Inc Notes 5% 3/1/15 CONV BONDS 45884XAD5 20042 16860000 PRN SOLE 16860000 0 0 Intermune Inc Notes 2.5% 12/15/17 CONV BONDS 45884XAF0 58425 41000000 PRN SOLE 41000000 0 0 Medivation 2.625% 4/1/17 CONV BONDS 58501NAA9 55559 39500000 PRN SOLE 39500000 0 0 Salix 2.75% 5/15/15 CONV BONDS 795435AC0 335332 219440000 PRN SOLE 219440000 0 0