Abstracts to publications by Rosetta Inpharmatics employees are available below. In some cases, supporting data is also available. Note: Current Rosetta Inpharmatics employees are shown in boldface type.
Optimization of oligonucleotide arrays and RNA amplification protocols for analysis of transcript structure and alternative splicing
Genome Biology 2003 4:R66
John Castle* , Phil Garrett-Engele* , Christopher D Armour, Sven J Duenwald, Patrick M Loerch, Michael R Meyer, Eric E Schadt, Roland Stoughton, Mark L Parrish, Daniel D Shoemaker and Jason M Johnson
Rosetta Inpharmatics, Merck & Co. Inc., 12040 115th Ave NE, Kirkland, Washington 98034, USA
Correspondence: Jason M Johnson. E-mail: jason_johnson@merck.com
Expression profiling reveals off-target gene regulation by RNAi
Nature Biotechnology
June 2003 Volume 21 Number 6 pp 635 - 637
Aimee L Jackson1, 2, Steven R Bartz1, 2, Janell Schelter1, Sumire V Kobayashi1, Julja Burchard1, Mao Mao1, Bin Li1, Guy Cavet1 & Peter S Linsley1
1 Rosetta Inpharmatics LLC, 12040 115th Avenue NE, Kirkland, Washington 98034, USA.
2These authors contributed equally to this work.
Correspondence should be addressed to A L Jackson. e-mail: aimee_jackson@merck.com and S R Bartz. e-mail: steven_bartz@merck.com
Microarray standard data set and figures of merit for comparing data processing methods and experiment designs
Bioinformatics Vol. 19 no. 8 2003; Pages 956-965
Yudong D. He , Hongyue Dai , Eric E. Schadt , Guy Cavet , Stephen W. Edwards , Sergey B. Stepaniants , Sven Duenwald , Robert Kleinhanz , Allan R. Jones , Daniel D. Shoemaker and Roland B. Stoughton *
* To whom correspondence should be addressed.
† A wholly owned subsidiary of Merck & Co., Inc.
A Family-Based Test for Correlation between Gene Expression and Trait Values
The American Society of Human Genetics, 72:1323–1330, 2003
Peter Kraft,¹ Eric Schadt,4 Jason Aten,2 and Steve Horvath¹,3
Departments of ¹Biostatistics, 2Biomathematics, and 3Human Genetics, University of California at Los Angeles, Los Angeles; and 4Department of Research Genetics, Rosetta Inpharmatics, Seattle
A new paradigm for drug discovery: integrating clinical, genetic, genomic and molecular phenotype data to identify drug targets
Biochemical Society Transactions (2003) Volume 31, part 2
E.E. Schadt*¹, S.A. Monks*† and S.H. Friend*‡¹
* Rosetta Inpharmatics LLC, 12040 115th Avenue N.E., Kirkland, WA 98034, U.S.A.
† Department of Biostatistics, University of Washington, Seattle, WA 98195, U.S.A.
‡ Merck Research Laboratories, W42-213 Sumneytown Pike, POB 4, Westpoint, PA 19846, U.S.A.
¹To whom correspondence should be addressed (e-mail eric_schadt@merck.com or stephen_friend@merck.com).
Genetics Of Gene Expression Surveyed In Maize, Mouse And Man
Nature 422, 297 - 302 (2003); doi:10.1038/nature01434
Eric E. Schadt*†, Stephanie A. Monks*†‡, Thomas A. Drake§, Aldons J. Lusis, Nam Che, Veronica Colinayo, Thomas G. Ruff¶, Stephen B. Milligan*, John R. Lamb*, Guy Cavet*, Peter S. Linsley*, Mao Mao*, Roland B. Stoughton* & Stephen H. Friend*#
* Rosetta Inpharmatics, LLC, 12040 115th Avenue N.E., Kirkland, Washington 98034, USA
‡ Department of Biostatistics, University of Washington, Seattle, Washington 98195, USA
§ Department of Pathology and Laboratory Medicine, Molecular Genetics and Immunology, Department of Medicine, and Department of Human Genetics, UCLA, Los Angeles, California 90095, USA
Department of Microbiology, Molecular Genetics and Immunology, Department of Medicine, and Department of Human Genetics, UCLA, Los Angeles, California 90095, USA
¶ Monsanto Company, St Louis, Missouri 63167, USA
# Merck Research Laboratories, Merck & Co., Inc., POB 4, WP14-2500, West Point, Pennsylvania 19486, USA
† These authors contributed equally to this work
Correspondence and requests for materials should be addressed to E.E.S. (e-mail: eric_schadt@merck.com) or S.H.F. (e-mail: stephen_friend@merck.com).
Visit Nature online at http://www.nature.com.
The toxicogenomics of nuclear receptor agonists.
Current Opinion in Chemical Biology. 2003 Aug;7(4):505-10
Ulrich RG.
Rosetta Inpharmatics LLC, Merck Research Laboratories, 12040 115th Ave. NE, Kirkland, WA 92037, USA. roger_ulrich@merck.com
Protein family annotation in a multiple alignment viewer
Bioninformatics Vol. 19 no. 4 2003, pages 544–545
Jason M. Johnson1,*,†, Keith Mason2, Ciamac Moallemi2,
Hualin Xi 1, Shyamal Somaroo1 and Enoch S. Huang1,*
1Pfizer Discovery Technology Center, 620 Memorial Drive, Cambridge, MA 02139, USA and 2Neogenesis Drug Discovery, 840 Memorial Drive, Cambridge, MA 02139, USA
*To whom correspondence should be addressed.
† Present address: Rosetta Inpharmatics, 12040 115th Avenue NE, Kirkland,
WA 98034, USA.
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