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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » Genetics and Animal Breeding » Research » Publications at this Location » Publication #159186
Title: DEVELOPMENT AND TESTING OF A HIGH-DENSITY CDNA MICROARRAY RESOURCE FOR CATTLE

Author
item SUCHYTA, STEVEN
item SIPKOVSKY, SUE
item KRUSKA, RACHAEL
item JEFFERS, ABRA
item MCNULTY, AMANDA
item TEMPELMAN, ROBERT
item HALGREN, ROBERT
item SAAMA, PETER
item BAUMAN, DALE
item BOISCLAIR, YVES
item BURTON, JEANNE
item COLLIER, ROBERT
item DEPETERS, EDWARD
item FERRIS, THEODORE
item LUCY, MATTHEW
item MCGUIRE, MARK
item MEDRANO, JUAN
item OVERTON, THOMAS
item Smith, Timothy - Tim
item SMITH, GEORGE
item Sonstegard, Tad
item SPAIN, JAMES
item SPIERS, DONALD
item YAO, JIANBO
item COUSSENS, PAUL

Submitted to: Physiological Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 7/16/2003
Publication Date: 11/1/2003
Citation: Suchyta, S.P., Sipkovsky, S., Kruska, R., Jeffers, A., Mcnulty, A., 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., Smith, T.P., Smith, G.W., Sonstegard, T.S., Spain, J.N., Spiers, D.E., Yao, J., Coussens, P.M. 2003.Development and testing of a high-density cdna microarray resource for cattle. Physiological Genomics. 15:158-164.

Interpretive Summary: We have developed a high-quality, high-density cDNA microarray resource for studies of bovine physiology. Design of the National Bovine Functional Genomics Consortium (NBFGC) cDNA microarray produced a low incidence of false positives and therefore, gene expression differences observed using this resource should be highly reliable. The NBFGC EST set is fully integrated in a web-accessible database (http://nbfgc.msu.edu). The NBFGC cDNA microarray represents the largest microarray to date designed specifically for a livestock species and will allow for large scale screening of gene expression differences in cattle.

Technical 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) EST collection was establihsed 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 microarrray has been tested for false positive rates using 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.