Baker Bros. Advisors 13F-HR Quarterly holdings report by institutional manager

The Securities and Exchange Commission has not necessarily reviewed the information in this filing and has not determined if it is accurate and complete.
The reader should not assume that the information is accurate and complete.

UNITED STATES SECURITIES AND EXCHANGE COMMISSION
Washington, D.C. 20549
FORM 13F

FORM 13F INFORMATION TABLE

OMB APPROVAL

OMB Number:		3235-0006
Expires:	Oct 31, 2018
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COLUMN 1	COLUMN 2	COLUMN 3	COLUMN 4	COLUMN 5			COLUMN 6	COLUMN 7	COLUMN 8
			VALUE	SHRS OR	SH/	PUT/	INVESTMENT	OTHER	VOTING AUTHORITY
NAME OF ISSUER	TITLE OF CLASS	CUSIP	(x$1000)	PRN AMT	PRN	CALL	DISCRETION	MANAGER	SOLE	SHARED	NONE
AbbVie Inc.	COM	00287Y109	821,016	14,373,538	SH		SOLE		14,373,538	0	0
ACADIA Pharmaceuticals Inc.	COM	004225108	677,019	24,213,838	SH		SOLE		24,213,838	0	0
Acceleron Pharma, Inc.	COM	00434H108	759	28,765	SH		SOLE		28,765	0	0
Achaogen, Inc.	COM	004449104	276	100,000	SH		SOLE		100,000	0	0
Achillion Pharmaceuticals, Inc.	COM	00448Q201	19,111	2,475,515	SH		SOLE		2,475,515	0	0
Acorda Therapeutics, Inc.	COM	00484M106	96,836	3,661,082	SH		SOLE		3,661,082	0	0
Adamas Pharmaceuticals, Inc.	COM	00548A106	2,496	172,630	SH		SOLE		172,630	0	0
Adaptimmune Therapeutics plc	SPONSORED ADR	00653A107	813	100,000	SH		SOLE		100,000	0	0
Advanced Accelerator Applications S.A.	SPONSORED ADR	00790T100	21,538	615,033	SH		SOLE		1,230,066	0	0
Aerie Pharmaceuticals, Inc.	COM	00771V108	3,640	299,356	SH		SOLE		299,356	0	0
Affimed N.V.	COM	N01045108	1,496	400,000	SH		SOLE		400,000	0	0
Agios Pharmaceuticals, Inc.	COM	00847X104	12,501	307,915	SH		SOLE		307,915	0	0
Aimmune Therapeutics, Inc.	COM	00900T107	3,390	250,000	SH		SOLE		250,000	0	0
Akari Therapeutics plc	SPONSORED ADR	00972G108	5,542	395,882	SH		SOLE		395,882	0	0
Alcobra Ltd.	SHS	M2239P109	8,855	2,336,359	SH		SOLE		2,336,359	0	0
Aldeyra Therapeutics, Inc.	COM	01438T106	595	142,000	SH		SOLE		142,000	0	0
Alexion Pharmaceuticals, Inc.	COM	015351109	910,861	6,542,599	SH		SOLE		6,542,599	0	0
Alkermes plc	SHS	G01767105	8,556	250,251	SH		SOLE		250,251	0	0
Alnylam Pharmaceuticals, Inc.	COM	02043Q107	712	11,340	SH		SOLE		11,340	0	0
Amarin Corporation plc	SPONSORED ADR NEW	023111206	1,227	801,860	SH		SOLE		801,860	0	0
Anacor Pharmaceuticals, Inc.	COM	032420101	273,791	5,122,375	SH		SOLE		5,122,375	0	0
Aptose Biosciences Inc.	COM NEW	03835T200	100	33,397	SH		SOLE		33,397	0	0
Aquinox Pharmaceuticals, Inc.	COM	03842B101	68,377	7,752,487	SH		SOLE		7,752,487	0	0
Array BioPharma Inc.	COM	04269X105	12,716	4,310,666	SH		SOLE		4,310,666	0	0
Arrowhead Pharmaceuticals, Inc.	COM NEW	04280A100	4,866	1,009,509	SH		SOLE		1,009,509	0	0
Ascendis Pharma A/S	SPONSORED ADR	04351P101	9,377	505,521	SH		SOLE		505,521	0	0
Assembly Biosciences, Inc.	COM	045396108	1,255	250,000	SH		SOLE		250,000	0	0
aTyr Pharma, Inc.	COM	002120103	8,422	2,137,606	SH		SOLE		2,137,606	0	0
Aurinia Pharmaceuticals Inc.	COM	05156V102	2,082	711,499	SH		SOLE		711,499	0	0
BeiGene, Ltd.	SPONSORED ADR	07725L102	56,061	1,912,680	SH		SOLE		24,864,840	0	0
Bellicum Pharmaceuticals, Inc.	COM	079481107	45,494	4,865,647	SH		SOLE		4,865,647	0	0
BioCryst Pharmaceuticals, Inc.	COM	09058V103	42,480	15,010,534	SH		SOLE		15,010,534	0	0
BioDelivery Sciences International, Inc.	COM	09060J106	678	210,021	SH		SOLE		210,021	0	0
BioMarin Pharmaceutical Inc.	COM	09061G101	396,439	4,806,483	SH		SOLE		4,806,483	0	0
BioTime, Inc.	*W EXP 10/1/201	09066L162	12	20,084	SH		SOLE		20,084	0	0
bluebird bio, Inc.	COM	09609G100	15,000	352,943	SH		SOLE		352,943	0	0
Catalyst Pharmaceuticals, Inc.	COM	14888U101	6,433	5,498,459	SH		SOLE		5,498,459	0	0
Cellectis S.A.	SPONSORED ADS	15117K103	1,375	50,000	SH		SOLE		50,000	0	0
Cerus Corporation	COM	157085101	80,371	13,553,275	SH		SOLE		13,553,275	0	0
ChemoCentryx, Inc.	COM	16383L106	122	49,064	SH		SOLE		49,064	0	0
Chimerix, Inc.	COM	16934W106	589	115,216	SH		SOLE		115,216	0	0
Concert Pharmaceuticals, Inc.	COM	206022105	6,774	495,908	SH		SOLE		495,908	0	0
Curis, Inc.	COM	231269101	3,219	1,999,303	SH		SOLE		1,999,303	0	0
Cyclacel Pharmaceuticals, Inc.	PFD CONV EX 6%	23254L207	76	13,253	SH		SOLE		13,253	0	0
CytRx Corporation	COM PAR $.001	232828509	1,769	659,995	SH		SOLE		659,995	0	0
DBV Technologies S.A.	SPONSORED ADR	23306J101	179,336	5,509,560	SH		SOLE		2,754,780	0	0
Derma Sciences, Inc.	COM PAR $.01	249827502	11,632	3,752,390	SH		SOLE		3,752,390	0	0
Dermira, Inc.	COM	24983L104	5,687	275,000	SH		SOLE		275,000	0	0
Dimension Therapeutics, Inc.	COM	25433V105	9,802	1,251,881	SH		SOLE		1,251,881	0	0
Discovery Laboratories, Inc.	COM PAR	254668502	426	254,973	SH		SOLE		254,973	0	0
Dynavax Technologies Corporation	COM NEW	268158201	1,443	75,000	SH		SOLE		75,000	0	0
Enanta Pharmaceuticals, Inc.	COM	29251M106	2,213	75,357	SH		SOLE		75,357	0	0
Endocyte, Inc.	COM	29269A102	5,257	1,695,865	SH		SOLE		1,695,865	0	0
Epizyme, Inc.	COM	29428V104	2,818	232,481	SH		SOLE		232,481	0	0
Exelixis, Inc.	COM	30161Q104	10,320	2,580,000	SH		SOLE		2,580,000	0	0
Five Prime Therapeutics, Inc.	COM	33830X104	782	19,247	SH		SOLE		19,247	0	0
Foamix Pharmaceuticals Ltd.	SHS	M46135105	14,616	2,241,702	SH		SOLE		2,241,702	0	0
Foundation Medicine, Inc.	COM	350465100	380	20,892	SH		SOLE		20,892	0	0
Galapagos NV	SPONSORED ADR	36315X101	12,688	303,394	SH		SOLE		303,394	0	0
Genomic Health, Inc.	COM	37244C101	338,354	13,659,832	SH		SOLE		13,659,832	0	0
Global Blood Therapeutics, Inc.	COM	37890U108	9,516	600,000	SH		SOLE		600,000	0	0
GW Pharmaceuticals plc	ADS	36197T103	1,082	15,000	SH		SOLE		15,000	0	0
Halozyme Therapeutics, Inc.	COM	40637H109	18,287	1,931,057	SH		SOLE		1,931,057	0	0
Heron Therapeutics, Inc.	COM	427746102	55,219	2,907,784	SH		SOLE		2,907,784	0	0
Idera Pharmaceuticals, Inc.	COM NEW	45168K306	13,841	6,990,189	SH		SOLE		6,990,189	0	0
Ignyta, Inc.	COM	451731103	3,866	571,000	SH		SOLE		571,000	0	0
Immune Design Corp.	COM	45252L103	1,936	148,937	SH		SOLE		148,937	0	0
ImmunoGen, Inc.	COM	45253H101	37,935	4,452,445	SH		SOLE		4,452,445	0	0
Incyte Corporation	COM	45337C102	1,702,933	23,498,460	SH		SOLE		23,498,460	0	0
Insmed Incorporated	COM PAR $.01	457669307	19,005	1,500,000	SH		SOLE		1,500,000	0	0
Intra-Cellular Therapies, Inc.	COM	46116X101	16,935	609,166	SH		SOLE		609,166	0	0
Invitae Corporation	COM	46185L103	67,057	6,554,967	SH		SOLE		6,554,967	0	0
InVivo Therapeutics Holdings Corp.	COM NEW	46186M209	2,792	400,000	SH		SOLE		400,000	0	0
Ironwood Pharmaceuticals, Inc.	COM CL A	46333X108	1,851	169,163	SH		SOLE		169,163	0	0
Ionis Pharmaceuticals, Inc.	COM	462222100	2,314	57,140	SH		SOLE		57,140	0	0
Juno Therapeutics, Inc.	COM	48205A109	3,047	80,000	SH		SOLE		80,000	0	0
Karyopharm Therapeutics Inc.	COM	48576U106	1,936	216,990	SH		SOLE		216,990	0	0
La Jolla Pharmaceutical Company	COM PAR $.0001 2	503459604	287	13,746	SH		SOLE		13,746	0	0
Ligand Pharmaceuticals Incorporated	COM NEW	53220K504	7,859	73,386	SH		SOLE		73,386	0	0
Lion Biotechnologies, Inc.	COM	53619R102	5,417	1,066,285	SH		SOLE		1,066,285	0	0
Loxo Oncology, Inc.	COM	548862101	3,766	137,735	SH		SOLE		137,735	0	0
MacroGenics, Inc.	COM	556099109	6,819	363,676	SH		SOLE		363,676	0	0
Mast Therapeutics, Inc.	COM	576314108	1,309	4,797,442	SH		SOLE		4,797,442	0	0
Medivation, Inc.	COM	58501N101	15,168	329,876	SH		SOLE		329,876	0	0
Medgenics Inc.	COM NEW	58436Q203	3,366	765,000	SH		SOLE		765,000	0	0
MediWound Ltd.	ORD SHS	M68830104	1,824	226,000	SH		SOLE		226,000	0	0
Mirati Therapeutics, Inc.	COM	60468T105	69,947	3,268,556	SH		SOLE		3,268,556	0	0
Nabriva Therapeutics AG	SPONSORED ADR	62957M104	3,136	350,000	SH		SOLE		350,000	0	0
Natera, Inc.	COM	632307104	4,284	450,000	SH		SOLE		450,000	0	0
Neurocrine Biosciences, Inc.	COM	64125C109	35,414	895,422	SH		SOLE		895,422	0	0
NeuroDerm Ltd.	ORD SHS	M74231107	4,307	305,000	SH		SOLE		305,000	0	0
Novavax, Inc.	COM	670002104	12,277	2,379,254	SH		SOLE		2,379,254	0	0
Omeros Corporation	COM	682143102	11,493	749,250	SH		SOLE		749,250	0	0
Ophthotech Corporation	COM	683745103	1,507	35,649	SH		SOLE		35,649	0	0
Osiris Therapeutics, Inc.	COM	68827R108	2,850	499,193	SH		SOLE		499,193	0	0
Palatin Technologies, Inc.	COM PAR $.01	696077403	1,107	2,050,000	SH		SOLE		2,050,000	0	0
Progenics Pharmaceuticals, Inc.	COM	743187106	18,970	4,350,808	SH		SOLE		4,350,808	0	0
ProNai Therapeutics, Inc.	COM	74346L101	1,348	200,000	SH		SOLE		200,000	0	0
ProQR Therapeutics N.V.	SHS EURO	N71542109	6,587	1,349,719	SH		SOLE		1,349,719	0	0
Proteon Therapeutics Inc.	COM	74371L109	2,311	298,591	SH		SOLE		298,591	0	0
Ritter Pharmaceuticals, Inc.	COM	767836109	452	400,000	SH		SOLE		400,000	0	0
Sage Therapeutics, Inc.	COM	78667J108	7,183	224,048	SH		SOLE		224,048	0	0
Sangamo BioSciences, Inc.	COM	800677106	24,538	4,055,876	SH		SOLE		4,055,876	0	0
Seattle Genetics, Inc.	COM	812578102	1,517,126	43,235,267	SH		SOLE		43,235,267	0	0
Seres Therapeutics, Inc.	COM	81750R102	3,320	125,000	SH		SOLE		125,000	0	0
Spark Therapeutics, Inc.	COM	84652J103	37,253	1,262,382	SH		SOLE		1,262,382	0	0
Stemline Therapeutics, Inc.	COM	85858C107	1,554	333,497	SH		SOLE		333,497	0	0
Sunesis Pharmaceuticals, Inc.	COM NEW	867328601	2,403	4,450,000	SH		SOLE		4,450,000	0	0
Arbutus Biopharma Corporation	COM	03879J100	746	180,582	SH		SOLE		180,582	0	0
Tenax Therapeutics, Inc.	COM	88032L100	861	420,000	SH		SOLE		420,000	0	0
TG Therapeutics, Inc.	COM	88322Q108	17,074	2,003,991	SH		SOLE		2,003,991	0	0
Trevena, Inc.	COM	89532E109	3,722	450,000	SH		SOLE		450,000	0	0
Trillium Therapeutics Inc.	COM NEW	89620X506	1,959	211,792	SH		SOLE		211,792	0	0
Ultragenyx Pharmaceutical Inc.	COM	90400D108	7,844	123,894	SH		SOLE		123,894	0	0
uniQure N.V.	SHS	N90064101	2,732	230,000	SH		SOLE		230,000	0	0
Versartis, Inc.	COM	92529L102	25,660	3,199,559	SH		SOLE		3,199,559	0	0
Vitae Pharmaceuticals, Inc.	COM	92847N103	4,227	637,597	SH		SOLE		637,597	0	0
Xencor, Inc.	COM	98401F105	11,703	872,072	SH		SOLE		872,072	0	0
XenoPort, Inc.	COM	98411C100	15,675	3,475,672	SH		SOLE		3,475,672	0	0
Zogenix, Inc.	COM NEW	98978L204	9,240	1,000,000	SH		SOLE		1,000,000	0	0
Acorda Therapeutics, Inc. Notes 1.75% 6/15/2021	NOTE 1.75% 6/15/2021	00484MAA4	68,456	77,083,000	PRN		SOLE		77,083,000	0	0
Anacor Pharmaceuticals Inc. 2.0% 15 OCT 2021	NOTE 2.0% 10/15/2021	032420AC5	75,337	42,000,000	PRN		SOLE		42,000,000	0	0
Aegerion Pharmaceuticals, Inc. Notes 2.0% 8/15/2019	NOTE 2.0% 8/15/2019	00767EAB8	13,526	26,517,000	PRN		SOLE		26,517,000	0	0
Array BioPharma Inc. Notes 3.0% 6/1/2020	NOTE 3.0% 6/1/2020	04269XAA3	2,382	3,000,000	PRN		SOLE		3,000,000	0	0
BioMarin Pharmaceutical Inc. Notes 1.875% 4/23/2017	NOTE 1.875% 4/23/2017	09061GAD3	89,825	22,379,000	PRN		SOLE		22,379,000	0	0
BioMarin Pharmaceutical Inc. Notes 0.75% 10/15/2018	NOTE 0.75% 10/15/2018	09061GAE1	14,125	12,228,000	PRN		SOLE		12,228,000	0	0
Clovis Oncology Inc. 2.5% 9/15/2021	NOTE 2.5% 9/15/2021	189464AB6	87,801	129,300,000	PRN		SOLE		129,300,000	0	0
Corsicanto Ltd. 3.5% 1/15/2032	NOTE 3.5% 1/15/2032	220480AB3	12,103	15,000,000	PRN		SOLE		15,000,000	0	0
Exelixis, Inc. Notes 4.25% 8/15/2019	NOTE 4.25% 8/15/2019	30161QAC8	19,775	20,000,000	PRN		SOLE		20,000,000	0	0
Gilead Sciences, Inc. 1.625% 5/1/16	NOTE 1.625% 5/1/2016	375558AP8	85,863	20,944,000	PRN		SOLE		20,944,000	0	0
Incyte Corporation Notes 0.375% 11/15/2018 144A	NOTE 0.375% 11/15/2018	45337CAK8	397,943	259,000,000	PRN		SOLE		259,000,000	0	0
Incyte Corporation Notes 1.25% 11/15/2020 144A	NOTE 1.25% 11/15/2020	45337CAL6	432,150	274,500,000	PRN		SOLE		274,500,000	0	0
Protalix BioTherapeutics, Inc. Notes 4.5% 9/15/18	NOTE 4.5% 9/15/2018	74365AAB7	2,334	3,423,000	PRN		SOLE		3,423,000	0	0
Xenoport, Inc. Notes 2.5% 2/1/2022	NOTE 2.5% 2/1/2022	98411CAB6	73,436	100,000,000	PRN		SOLE		100,000,000	0	0