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Thomas D. Wu and Colin K. Watanabe. (2005) GMAP: A Genomic Mapping and Alignment Program for mRNA and EST Sequences, Bioinformatics, 21: 1859-1875. Article, source code, and supplementary materials
Mark Merchant, Marie Evangelista, Shiuh-Ming Luoh, Gretchen D. Frantz, Sreedevi Chalasani, Richard A.D. Carano, Marjie van Hoy, Julio Ramirez, Annie K. Ogasawara, Leanne M. McFarland, Ellen H. Filvaroff, Dorothy M. French, and Frederic J. de Sauvage. (2005) Loss of the Serine/Threonine Linase Fused Results in Post-natal Growth Defects and Lethality Due to Progressive Hydrocephalus, Mol. Cell. Biol, 25: 7054-7068. Supplementary Materials
Alex Abbas, Daryl Baldwin, Yan Ma, Wenjun Ouyang, Austin Gurney, Flavius Martin, Sherman Fong, Menno van Lookeren Campagne, Paul Godowski, P. Mickey Williams, Andrew C. Chan and Hilary F. Clark. (2005) Immune Response In Silico (IRIS): Immune Specific Genes Identified from a Compendium of Microarray Expression Data, Genes and Immunity, 6: 319-331. Article, Supplementary Materials, Expression Profiles
Yan Zhang, David A. Eberhard, Gretchen D. Frantz, Patrick Dowd, Thomas D. Wu, Yan Zhou, Colin Watanabe, Shiuh-Ming Luoh, Paul Polakis, Kenneth J. Hillan, William I. Wood, and Zemin Zhang. (2004) GEPIS--Quantitative Gene Expression Profiling in Normal and Cancer Tissues, Bioinformatics, 20: 2390-2398. Article, GEPIS Email Request, Interactive Version at UCSF
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Leon H. Parker, Maike Schmidt, Suk-Won Jin, Alane M. Gray, Dimitris Beis, Thinh Pham, Gretchen Frantz, Susan Palmieri, Kenneth Hillan, Didier Y.R. Stainier, Frederic J. de Sauvage, Weilan Ye. (2004) An Endothelial Cell Derived Secreted Factor Egfl7 Regulates Vascular Tube Formation, Nature, 428: 754-758. Supplementary materials
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Yan Zhou, Shiuh-Ming Luoh, Yan Zhang, Colin Watanabe, Thomas D. Wu, Michael Ostland, William I. Wood, and Zemin Zhang. (2003) Genome-Wide Identification of Chromosomal Regions of Increased Tumor Expression by Transcriptome Analysis, Cancer Research, 63: 5781-5784. Supplementary materials
Hilary F. Clark, Austin L. Gurney, Evangeline Abaya, Kevin Baker, Daryl Baldwin, Jennifer Brush, Jian Chen, Bernard Chow, Clarissa Chui, Craig Crowley, Bridget Currell, Bethanne Deuel, Patrick Dowd, Dan Eaton, Jessica Foster, Christopher Grimaldi, Qimin Gu, Philip E. Hass, Sherry Heldens, Arthur Huang, Hok Seon Kim, Laura Klimowski, Yisheng Jin, Stephanie Johnson, James Lee, Lhney Lewis, Dongzhou Liao, Melanie Mark, Edward Robbie, Celina Sanchez, Jill Schoenfeld, Somasekar Seshagiri, Laura Simmons, Jennifer Singh, Victoria Smith, Jeremy Stinson, Alicia Vagts, Richard Vandlen, Colin Watanabe, David Wieand, Kathryn Woods, Ming-Hong Xie, Daniel Yansura, Sothy Yi, Guoying Yu, Jean Yuan, Min Zhang, Zemin Zhang, Audrey Goddard, William I. Wood, Paul Godowski. (2003) The Secreted Protein Discovery Initiative (SPDI), a Large-Scale Effort to Identify Novel Human Secreted and Transmembrane Proteins: a Bioinformatics Assessment, Genome Research, 13: 2265-2270. PDF Word Supplementary materials SPDI Publications