0001144204-14-050184.txt : 20140814 0001144204-14-050184.hdr.sgml : 20140814 20140814161529 ACCESSION NUMBER: 0001144204-14-050184 CONFORMED SUBMISSION TYPE: 13F-HR PUBLIC DOCUMENT COUNT: 2 CONFORMED PERIOD OF REPORT: 20140630 FILED AS OF DATE: 20140814 DATE AS OF CHANGE: 20140814 EFFECTIVENESS DATE: 20140814 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: 141042967 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 06-30-2014 06-30-2014 false BAKER BROS. ADVISORS LP

667 Madison Ave 21st Floor New York NY 10065

13F HOLDINGS REPORT 028-10519 N Alexandra Toohey 212-339-5690 /s/ Alexandra Toohey New York NY 08-07-2014 0 107 8164077 INFORMATION TABLE 2 infotable.xml Acadia Pharmaceuticals Inc. COM 004225108 462676 20481442 SH SOLE 20481442 0 0 Acceleron Pharma Inc. COM 00434H108 977 28765 SH SOLE 28765 0 0 Achaogen Inc. COM 004449104 1396 100000 SH SOLE 100000 0 0 Achillion COM 00448Q201 3318 438337 SH SOLE 438337 0 0 Acorda Therapeutics, Inc. COM 00484M106 30544 906091 SH SOLE 906091 0 0 Aegerion Pharmaceuticals COM 00767E102 13283 413922 SH SOLE 413922 0 0 Aerie Pharmaceuticals COM 00771V108 7415 299356 SH SOLE 299356 0 0 Agios Pharmaceuticals COM 00847X104 9159 199893 SH SOLE 199893 0 0 Alder Biopharmaceuticals, Inc. COM 014339105 3078 153350 SH SOLE 153350 0 0 Alnylam Pharmaceuticals, Inc. COM 02043Q107 733 11600 SH SOLE 11600 0 0 Ambit Biosciences Corp. COM 02318X100 5168 747954 SH SOLE 747954 0 0 Amicus Therapeutics COM 03152W109 1609 481697 SH SOLE 481697 0 0 Anacor Pharmaceuticals COM 032420101 57588 3248043 SH SOLE 3248043 0 0 Aquinox Pharmaceuticals, Inc. COM 03842B101 11355 1211851 SH SOLE 1211851 0 0 Array Biopharma Inc. COM 04269X105 6538 1433797 SH SOLE 1433797 0 0 Arrowhead Research Corp. COM 042797209 20475 1430802 SH SOLE 1430802 0 0 Avanir Pharmaceuticals COM CLASS A 05348P401 104670 18558487 SH SOLE 18558487 0 0 Biocryst Pharmaceuticals Inc. COM 09058V103 138859 10890872 SH SOLE 10890872 0 0 BioDelivery Sciences Intl. Inc. COM 09060J106 5082 421005 SH SOLE 421005 0 0 Biomarin Pharmaceuticals COM 09061G101 118711 1908230 SH SOLE 1908230 0 0 Biota Pharmaceuticals COM 090694100 3155 1106910 SH SOLE 1106910 0 0 Bluebird Bio Inc. COM 09609G100 7647 198260 SH SOLE 198260 0 0 Catalyst Pharmaceuticals, Inc. COM 14888U101 5624 2223053 SH SOLE 2223053 0 0 Celsus Therapeutics SPONSORED ADR NE 15119A202 3706 673887 SH SOLE 673887 0 0 Cerus COM 157085101 42523 10246591 SH SOLE 10246591 0 0 Chemocentryx Inc. COM 16383L106 293 50000 SH SOLE 50000 0 0 Clovis Oncology COM 189464100 32847 793221 SH SOLE 793221 0 0 Concert Pharmaceuticals, Inc. COM 206022105 4028 398800 SH SOLE 398800 0 0 Cyclacel Pharmaceuticals Pfd. Conv. Ex 6% PFD CONV EX 6% 23254L207 108 13253 SH SOLE 13253 0 0 Cytrx Corp. COM 232828509 5643 1350000 SH SOLE 1350000 0 0 Derma Sciences COM 249827502 40889 3537137 SH SOLE 3537137 0 0 Discovery Laboratories Inc. COM 254668403 6501 3652117 SH SOLE 3652117 0 0 Dyax Corp. COM 26746E103 54540 5681237 SH SOLE 5681237 0 0 Enanta Pharmaceuticals COM 29251M106 3246 75357 SH SOLE 75357 0 0 Epizyme Inc. COM 29428V104 6660 214012 SH SOLE 214012 0 0 Five Prime Therapeutics Inc. COM 33830X104 308 19823 SH SOLE 19823 0 0 Foundation Medicine Inc. COM 350465100 2107 78162 SH SOLE 78162 0 0 Galectin Therapeutics Inc. COM 363225202 4143 300000 SH SOLE 300000 0 0 Genomic Health Inc. COM 37244C101 374144 13654902 SH SOLE 13654902 0 0 Geron Corp. COM 374163103 1292 402629 SH SOLE 402629 0 0 Gilead Sciences Inc. COM 375558103 21234 256108 SH SOLE 256108 0 0 Halozyme Therapeutics Inc. COM 40637H109 27428 2776143 SH SOLE 2776143 0 0 Heron Therapeutics, Inc. COM 427746102 32128 2607784 SH SOLE 2607784 0 0 Idera Pharmaceuticals Inc. COM 45168K306 4678 1613076 SH SOLE 1613076 0 0 Ignyta COM 451731103 5190 571000 SH SOLE 571000 0 0 Incyte Corp. COM 45337C102 837883 14845559 SH SOLE 14845559 0 0 Infinity Pharmaceuticals Inc. COM 45665G303 7950 624050 SH SOLE 624050 0 0 Insmed Inc. COM 457669307 6075 304050 SH SOLE 304050 0 0 Intermune Inc. COM 45884X103 208515 4722869 SH SOLE 4722869 0 0 Ironwood Pharmaceuticals COM 46333X108 6840 446160 SH SOLE 446160 0 0 Isis Pharmaceuticals, Inc. COM 464330109 3318 96303 SH SOLE 96303 0 0 Karyopharm Therapeutics COM 48576U106 4380 94095 SH SOLE 94095 0 0 Kythera Biopharmaceuticals COM 501570105 11943 311255 SH SOLE 311255 0 0 La Jolla Pharmaceuticals, Inc. COM 503459604 2035 221631 SH SOLE 221631 0 0 Ligand Pharmaceuticals COM 53220K504 4572 73400 SH SOLE 73400 0 0 Lipocine Inc. COM 53630X104 3050 500000 SH SOLE 500000 0 0 Macrogenics, Inc. COM 556099109 6777 311891 SH SOLE 311891 0 0 Mast Therapeutics, Inc. COM 057631410 1887 3000000 SH SOLE 3000000 0 0 Mediwound Ltd. COM M68830104 2561 225000 SH SOLE 225000 0 0 Mirati Therapeutics Inc. COM 60468T105 47601 2380074 SH SOLE 2380074 0 0 Neurocrine Biosciences, Inc. COM 64125C109 8230 554590 SH SOLE 554590 0 0 Novavax Inc. COM 670002104 5652 1223362 SH SOLE 1223362 0 0 Omeros Corp. COM 682143102 13116 753804 SH SOLE 753804 0 0 Ophthotech Corp. COM 683745103 1556 36776 SH SOLE 36776 0 0 Orasure Technologies Inc. SHS 68554V108 2020 234664 SH SOLE 234664 0 0 Osiris Therapeutics Inc. COM 68827R108 7976 510606 SH SOLE 510606 0 0 Pharmacyclics Inc. COM 716933106 860458 9591546 SH SOLE 9591546 0 0 Progenics Pharmaceuticals, Inc. COM 743187106 19179 4449797 SH SOLE 4449797 0 0 QLT Inc. COM 746927102 9492 1535863 SH SOLE 1535863 0 0 Questcor Pharmaceuticals, Inc. COM 74835Y101 46245 500000 SH SOLE 500000 0 0 Receptos Inc. COM 756207106 1018 23900 SH SOLE 23900 0 0 Regado COM 75874Q107 2716 400000 SH SOLE 400000 0 0 Repros Therapeutics COM 76028H209 48071 2778654 SH SOLE 2778654 0 0 Rigel Pharmaceuticals COM 766559603 1750 481972 SH SOLE 481972 0 0 Salix Pharmaceuticals COM 795435106 1063 8621 SH SOLE 8621 0 0 Salix Pharmaceuticals Ltd Put 110 July 14 COM 795435956 13063 105900 SH SOLE 105900 0 0 Salix Pharmaceuticals Ltd Put 115 July 14 COM 795435956 2368 19200 SH SOLE 19200 0 0 Sangamo Biosceiences, Inc. COM 800677106 7983 522764 SH SOLE 522764 0 0 Seattle Genetics, Inc. COM 812578102 859562 22472229 SH SOLE 22472229 0 0 Stemline Therapeutics Inc. COM 85858C107 4968 338671 SH SOLE 338671 0 0 Synageva Biopharma Corp. COM 87159A103 1117213 10660432 SH SOLE 10660432 0 0 Synergy Pharmaceuticals COM 871639308 7156 1758271 SH SOLE 1758271 0 0 Synta Pharmaceuticals COM 87162T206 2045 500000 SH SOLE 500000 0 0 Tekmire Pharmaceuticals Corp. COM 87911B209 6323 484156 SH SOLE 484156 0 0 Tesaro Inc. COM 881569107 971 31218 SH SOLE 31218 0 0 TG Therapeutics COM 88322Q108 20291 2160965 SH SOLE 2160965 0 0 Threshold Pharma COM 885807206 7232 1826358 SH SOLE 1826358 0 0 Ultragenyx Pharmaceuticals COM 90400D108 4489 100000 SH SOLE 100000 0 0 Uniquere B.V. COM N90064101 417 30672 SH SOLE 30672 0 0 Vanda Pharmaceuticals, Inc. COM 921659108 70741 4372153 SH SOLE 4372153 0 0 Versartis Inc. COM 92529L102 34935 1245889 SH SOLE 1245889 0 0 Xencor COM 98401F105 6302 542363 SH SOLE 542363 0 0 Xenoport COM 98411C100 19485 4034112 SH SOLE 4034112 0 0 Xoma Corp. COM 98419J107 105873 23065972 SH SOLE 23065972 0 0 Ziopharm Oncology Inc. COM 98973P101 986 244619 SH SOLE 244619 0 0 Zogenix, Inc. COM 98978L105 4724 2350400 SH SOLE 2350400 0 0 Biomarin Pharmaceuticals Notes 1.875% 4/23/2017 CONV BONDS 09061GAD3 70511 22898000 PRN SOLE 0 0 0 Biomarin Pharmaceuticals Notes 0.75% 10/15/2018 CONV BONDS 09061GAE1 12895 12500000 PRN SOLE 0 0 0 Gilead 1.625% 5/1/16 CONV BONDS 375558AP8 78358 21500000 PRN SOLE 0 0 0 Incyte Corporation Notes 4.75% 10/1/2015 144A CONV BONDS 45337CAJ1 259336 40446000 PRN SOLE 0 0 0 Incyte Corporation Notes 0.375% 11/15/2018 144A CONV BONDS 45337CAK8 345981 259000000 PRN SOLE 0 0 0 Incyte Corporation Notes 1.25% 11/15/2020 144A CONV BONDS 45337CAL6 371605 274500000 PRN SOLE 0 0 0 Intermune Inc Notes 5% 3/1/15 CONV BONDS 45884XAD5 39842 16860000 PRN SOLE 0 0 0 Intermune Inc Notes 2.5% 12/15/17 CONV BONDS 45884XAF0 141190 41000000 PRN SOLE 0 0 0 Medivation 2.625% 4/1/17 CONV BONDS 58501NAA9 55324 34720000 PRN SOLE 0 0 0 Salix 2.75% 5/15/15 CONV BONDS 795435AC0 585836 219440000 PRN SOLE 0 0 0 Salix 1.5% 3/15/19 CONV BONDS 795435AE6 29447 15000000 PRN SOLE 0 0 0