Projects

Enhancing Genetic Merit of Dairy Cattle Through Genome Selection and Analysis Appropriated (D)   Accession Number: 412388

Bovine Copy Number Polymorphism and Its Implication in Early Embryonic Loss Reimbursable (R)   Accession Number: 411649

Characterization of Structural Variations in Livestock Genomes Specific Cooperative Agreement (S)   Accession Number: 412653

Publications

Current Directions in Cattle Genomics Research - (Review Article)

Van Tassell, C.P., Sonstegard, T.S., Liu, G., Matukumalli, L.K. 2007. Current directions in cattle genomics research. Advancement of Animal Breeding & Genetics Meeting. pp. 461-470.

Genomic signatures of artificial selection in U.S. Holstein cows - (Abstract) - (20-Jun-08)

Genomic expression analysis of quiescent CD8 cells from tumor-infiltrating lymphocytes of in vivo liver tumor by single-cell mRNA differential display - (Peer Reviewed Journal) - (10-Jun-08)

Characterization of a novel microdeletion polymorphism on BTA5 in cattle - (Peer Reviewed Journal) - (30-Apr-08)

Epigenetic Case Studies in Agricultural Animals - (Abstract) - (25-Apr-08)

analysis of Cattle Copy Number Variation Reveals Insights into the Evolution of Ruminants - (Abstract)

Liu, G., Keele, J.W., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2008. analysis of cattle copy number variation reveals insights into the evolution of ruminants. 2008 meeting on the Biology of Genomes, May 6-10, 2007, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY. p197.

Applied Bovine Genomics: Chipping away at the genetics underlying disease traits. - (Abstract)

Sonstegard, T.S., Vanraden, P., Wiggans, G., Schnabel, S., Liu, G., Matukumalli, L.K., Silva, M.V., Mckay, S., Schroeder, S.G., Gasbarre, L.C., Taylor, J.F., Van Tassell, C.P. 2008. Applied Bovine Genomics: Chipping away at the genetics underlying disease traits.. International Symposium of Animal Functional Genomics.

SNPs to Chips: Changing the paradigm of mapping and selection in cattle - (Proceedings/Symposium)

Sonstegard, T.S., Liu, G., Matukumalli, L.K., Van Tassell, C.P. 2007. Snps to chips: changing the paradigm of mapping and selection in cattle. [abstracat].Animal Breeding and Animal Genetic Resources Proceedings.

Analysis of copy number variation in the bovine genome - (Abstract)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Brown, T., Smith, T.P., Gasbarre, L.C. 2008. Analysis of copy number variation in the bovine genome. Plant and Animal Genome (PAG) XVI Conference. San Diego, CA. p517.

A high-resolution map of copy number variation in the cattle genome - (Abstract)

Liu, G., Keele, J.W., Van Tassell, C.P., Sonstegard, T.S., Alexander, L.J., Li, R.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2008. A high-resolution map of copy number variation in the cattle genome. Plant and Animal Genome VX Conference Abstracts. The NRI Animal Genome PD Meeting, San Diego, CA. p84.

Detection of germline and somatic copy number variations in cattle - (Proceedings/Symposium)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2008. Detection of germline and somatic copy number variations in cattle. Developments in Biologicals. 132:231-237.

Description and analysis of the Bovine Gene Atlas - An extensive compendium of bovine transcript profiles - (Abstract)

Harhay, G.P., Keele, J.W., Smith, T.P., Alexander, L.J., Matukumalli, L.K., Schroeder, S.G., Liu, G., Van Tassell, C.P., Sonstegard, T.S. 2008. Description and analysis of the Bovine Gene Atlas - An extensive compendium of bovine transcript profiles (abstract). Plant and Animal Genome XVI Conference. Poster No. P516.

Bovine copy number variation and its implication in animal health - (Abstract)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2007. Bovine copy number variation and its implication in animal health. [ abstract]. International Symposium on Animal Genomics for Animal Health. pp. 32.

Initial analysis of copy number variation in the cow genome - (Abstract)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Li, R.W., Alexander, L.J., Keele, J.W., Matukumalli, L.K., Smith, T.P., Gasbarre, L.C. 2007. Initial analysis of copy number variation in the cow genome. [abstract}. Gordon Research Conference Proceedings.

Identification of conserved regulatory elements in upstream promoter regions of mammals at relaxed thresholds by comparative genomics - a case study using PEPCK - (Peer Reviewed Journal) - (25-Jun-07)

Construction and application of a bovine high-density SNP assay - (Abstract)

Van Tassell, C.P., Matukumalli, L.K., Taylor, C., Smith, T.P., Sonstegard, T.S., Schnabel, R., Silva, M.V., Wiggans, G.R., Liu, G., Moore, S., Taylor, J.F. 2007. Construction and application of a bovine high-density SNP assay. Joint Abstracts of the American Dairy Science and Society of Animal Science.

Recent Segmental Duplications in the Cattle Genome - (Abstract)

Liu, G., Matukumalli, L.K., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C., Eichler, E.E. 2007. Recent segmental duplications in the cattle genome. [abstract]. BARC Poster Day.Abstracat #25, p. 32.

Creation of a Gene Atlas in cattle using sequence-based transcriptional profiling - (Abstract)

Sonstegard, T.S., Keele, J.W., Harhay, G.P., Smith, T.P., Matukumalli, L.K., Van Tassell, C.P., Liu, G., Alexander, L.J. 2007. Creation of a Gene Atlas in cattle using sequence-based transcriptional profiling. [abstract] Joint Abstracts of the American Dairy Science and Society of Animal Science.

Protein Accumulation Changes Associated with Germination of the Uromyces appendiculatus Uredospore - (Peer Reviewed Journal)

Cooper, B., Neelan, A., Campbell, K., Lee, J., Liu, G., Garrett, W.M., Scheffler, B.E., Tucker, M.L. 2007. Protein Accumulation Changes Associated with Germination of the Uromyces appendiculatus Uredospore. Molecular Plant-Microbe Interactions. 20(7):857-866.

Identification of Weakly Conserved Regulatory Elements in Upstream Promoter Regions of Mammals - (Book/Chapter)

Liu, G., Weirauch, M., Van Tassell, C.P., Li, R.W., Sonstegard, T.S., Matukumalli, L.K., Connor, E.E., Hanson, R.W., Yang, J. 2007. Identification of Weakly Conserved Regulatory Elements in Upstream Promoter Regions of Mammals. Conference on the Biology og Genomes, pp. 218.

Stimultaneous prediction of multiple traits using dense genome-wide SNP markers - (Proceedings/Symposium)

Matukumalli, L.K., Sonstegard, T.S., Silva, M.V., Liu, G., Van Tassell, C.P. 2007. Stimultaneous prediction of multiple traits using dense genome-wide SNP markers. Meeting Proceedings.

Systematic Identification of Regulatory Elements in Cattle. - (Abstract)

Liu, G., Yang, J., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Hanson, R.W. 2006. Systematic identification of regulatory elements in cattle [abstract]. International Conference on Animal Genetics. Aug 2006, Porto Seguro, Brazil, pp C448.

Genomic Divergences among Cattle, Dog, and Human Estimated from Large-Scale Alignments of Genomic Sequences - (Peer Reviewed Journal)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Shade, L.L. 2006. Genomic divergences among cattle, dog, and human estimated from large-scale alignments of genomic sequences. Biomed Central (BMC) Genomics. 7(1):140.

Differential Turn-over Patterns of Transposable Elements Account for the Genome Size Differences among Cattle, Dog and Human. - (Abstract)

Liu, G., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P. 2006. Differential turn-over patterns of transposable elements account for the genome size differences among cattle, dog and human. (abstract) Conference on the Biology off Genomes, pp 187.

In Silico Prediction of Regulatory Elements by Phylogenetic Footprinting. - (Abstract)

Liu, G., Yang, J., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Hanson, R.W. 2006. In silico prediction of regulatory elements by phylogenetic footprinting. [abstract] BARC Poster Day. Beltsville, MD. pp. 32.

Comprehensive Search of Bovine Micrornas Expressed in Immune and Gut Tissues by Deep Sequencing - (Abstract)

Sonstegard, T.S., Matukumalli, L.K., Coutinho, L.L., Liu, G., Gasbarre, L.C., Smith, T.P. 2006. Comprehensive search of bovine micrornas expressed in immune and gut tissues by deep sequencing [abstract]. International Conference on Animal Genetics. pp. C354.

Characterization of Boivne Micrornas Expressed in Immune and Gut Tissues by Deep Sequencing - (Abstract)

Matukumalli, L.K., Coutinho, L.L., Sonstegard, T.S., Liu, G., Gasbarre, L.C., Smith, T.P. 2006. Characterization of boivne micrornas expressed in immune and gut tissues by deep sequencing [abstract] 17th Annual BARC Poster Day. Beltsville, MD. No 27.

Genome Resources and Comparative Analysis Tools for Cardiovascular Research - (Book/Chapter)

Liu, G., Adams, M.D. 2006. Genome resources and comparative analysis tools for cardiovascular research. IN: Methods of Molecular Medicine, Humana Press, pp. 101-123.

Comparative Genomics:genomic Variation Between Bovine and Human Genomes. - (Abstract)

Liu, G., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Shade, L.L. 2005. Comparative genomics:genomic variation between bovine and human genomes [abstract]. BARC Poster Day. p. 32.