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Nucleic Acids Research, 2003, Vol. 31, No. 1 94-96
© 2003 Oxford University Press

The Stanford Microarray Database: data access and quality assessment tools

Jeremy Gollub, Catherine A. Ball, Gail Binkley1, Janos Demeter, David B. Finkelstein2, Joan M. Hebert3, Tina Hernandez-Boussard, Heng Jin, Miroslava Kaloper1, John C. Matese, Mark Schroeder1, Patrick O. Brown4, David Botstein1 and Gavin Sherlock*

Department of Genetics, Center for Clinical Sciences Research, 269 Campus Drive, Room 2255b, Stanford University, Stanford, CA 94305-5163, USA 1 Department of Genetics, Stanford University Medical School, Stanford University, Stanford, CA 94305-5120, USA 2 Affymetrix, Inc., 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA 3 Stanford Functional Genomics Facility, Center for Clinical Sciences Research, 269 Campus Drive, Room 4256, Stanford University, Stanford, CA 94305-5177, USA 4 Howard Hughes Medical Institute, Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA

*To whom correspondence should be addressed. Email: sherlock{at}genome.stanford.edu

ABSTRACT

The Stanford Microarray Database (SMD; http://genome-www.stanford.edu/microarray/) serves as a microarray research database for Stanford investigators and their collaborators. In addition, SMD functions as a resource for the entire scientific community, by making freely available all of its source code and providing full public access to data published by SMD users, along with many tools to explore and analyze those data. SMD currently provides public access to data from 3500 microarrays, including data from 85 publications, and this total is increasing rapidly. In this article, we describe some of SMD's newer tools for accessing public data, assessing data quality and for data analysis.


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