Development and testing of a high-density cDNA microarray resource for cattle

Steven P. Suchyta, Sue Sipkovsky, Rachael Kruska, Abra Jeffers, Amanda McNulty, Matthew J. Coussens, Robert J. Tempelman, Robert G. Halgren, Peter M. Saama, Dale E. Bauman, Yves R. Boisclair, Jeanne L. Burton, Robert J. Collier, Edward J. DePeters, Theodore A. Ferris, Matthew C. Lucy, Mark A. McGuire, Juan F. Medrano, Thomas R. Overton, Timothy P. SmithGeorge W. Smith, Tad S. Sonstegard, James N. Spain, Donald E. Spiers, Jianbo Yao, Paul M. Coussens

Research output: Contribution to journalArticle

54 Scopus citations

Abstract

A cDNA microarray resource has been developed with the goal of providing integrated functional genomics resources for cattle. The National Bovine Functional Genomics Consortium's (NBFGC) expressed sequence tag (EST) collection was established in 2001 to develop resources for functional genomics research. The NBFGC EST collection and microarray contains 18,263 unique transcripts, derived from many different tissue types and various physiologically important states within these tissues. The NBFGC microarray has been tested for false-positive rates using self-self hybridizations and was shown to yield robust results in test microarray experiments. A web-accessible database has been established to provide pertinent data related to NBFGC clones, including sequence data, BLAST results, and ontology information. The NBFGC microarray represents the largest cDNA microarray for a livestock species prepared to date and should prove to be a valuable tool in studying genome-wide gene expression in cattle.

Original languageEnglish (US)
Pages (from-to)158-164
Number of pages7
JournalPhysiological Genomics
Volume15
DOIs
StatePublished - Jan 2004

Keywords

  • Bovine
  • Expressed sequence tag

ASJC Scopus subject areas

  • Physiology
  • Genetics

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    Suchyta, S. P., Sipkovsky, S., Kruska, R., Jeffers, A., McNulty, A., Coussens, M. J., Tempelman, R. J., Halgren, R. G., Saama, P. M., Bauman, D. E., Boisclair, Y. R., Burton, J. L., Collier, R. J., DePeters, E. J., Ferris, T. A., Lucy, M. C., McGuire, M. A., Medrano, J. F., Overton, T. R., ... Coussens, P. M. (2004). Development and testing of a high-density cDNA microarray resource for cattle. Physiological Genomics, 15, 158-164. https://doi.org/10.1152/physiolgenomics.00094.2003