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Barley1 GeneChip Development

The content of the Barley1 probe array benefited greatly from EST sequence chromatograms and/or matching sequence and quality value files generously provided by Dorrie Main (Clemson University Genomics Institute, South Carolina); Andreas Graner, Nils Stein, Winnie Weschke and Hangning Zhang (Institute of Plant Genetics and Crop Plant Research, Gatersleben, Germany); Kazuhiro Sato, Daisuke Saisho and Kazuyoshi Takeda (Okayama University, Japan) and Yuji Kohara and Tadasu Shin-I (National Institute of Genetics, Japan); Robbie Waugh, David Marshall, and Linda Cardle (Scottish Crop Research Institute, Dundee, Scotland); Hans Bohnert (University of Illinois); and Alan Schulman, Ari-Matti Sarén, and Jaakko Tanskanen (Institute of Biotechnology, University of Helsinki, Finland).

Thanks also to David Matthews (USDA-ARS, Cornell University, New York) for sequences that were available only from the GrainGenes database and to Shibo Zhang and Peggy Lemaux (University of California, Berkele! y) for help with common reporter gene sequences, Warren Krueger (University of Minnesota) for assistance with detection of fungal sequences, and Jan Svensson (University of California, Riverside) for assistance with chimera detection.

Special thanks goes to Xiaoqiu Huang (Iowa State University), for providing customized versions of the CAP3 assembly program and answering many questions about the algorithms, Dan Nettleton (Iowa State University) for advice on experimental design, Qunfeng Dong (PlantGDB, Iowa State University) and Doreen Ware (Gramene Database, Cold Spring Harbor, New York) for facilitating linkage with BarleyBase, and the Affymetrix team of Eric Schell, Gene Tanimoto, Alan Williams, Xue Mei Zhou, Lianne McLean, Paul Doran, Mike Mittman, Venu Valmeekam, Sandra Wells, Dawn Kerber, Curtis Fideler, Joe Prosser and Kyle O'Connor.

This database is supported by

  • USDA Initiative for Future Agriculture and Food Systems (IFAFS) #01-52100-11346 9/1/01 - 8/31/04; "An integrated physical and expression map of barley for Triticeae improvement" to Andris Kleinhofs, Roger P. Wise, Rod A. Wing, Timothy J.Close, Gary J. Muehlbauer.

  • USDA-NRI/CGP #2002-03582 9/15/02 - 9/31/05; "BarleyBase, a prototype online database for cereal microarrays with integrated tools for data visualization and statistical analysis" to J. Dickerson, Computer and Electrical Engineering; V. Brendel, Zoology & Genetics; R. Wise, Plant Pathology; D. Cook and D. Nettleton, Statistics; Dan Ashlock, Mathematics.

  • USDA-CSREES North American Barley Genome Project funds to Roger P. Wise, Daniel A. Ashlock and Julie A. Dickerson.

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