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 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)

Estimates of (co) variance components using random regression models for gastrointestinal helminthoid data in Angus cattle. - (Peer Reviewed Journal)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2008. Estimates of (co) variance components using random regression models for gastrointestinal helminthoid data in Angus cattle. Brazilian Animal Science Society. CD-ROM MEL036. p. 105.

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.

Using Different Transformations in Analyses of Fecal Egg Count Data - (Abstract)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C. 2007. Using different transformations in analyses of fecal egg count data. BARC Poster Day.

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.

Genetic resistance to nematodes parasites in sheep: use of Box-Cox transformation in QTL mapping - (Abstract)

Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Malek, M., Boettcher, P., Mugambi, J., Nagda, S., Kemp, S., Hanotte, O. 2007. Genetic resistance to nematodes parasites in sheep: use of Box-Cox transformation in QTL mapping. [abstract]. Joint Abstracts of the American Dairy Science and Society of Animal Science.

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.

Profiling of Bovine Micrornas from Immune Related and Embryonic Tissues. - (Abstract)

Matukumalli, L.K., Coutinho, L.L., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2006. Profiling of bovine micrornas from immune related and embryonic tissues [abstract]. International Conference on Animal Genetics. pp. C329.

Identification of Bovine Micrornas - (Abstract)

Matukumalli, L.K., Coutinho, L.L., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2006. Identification of bovine micrornas [abstract]. Cold Springs Harbor Laboratories 71 Symposium of Regulatoary RNAs. Cold Spring Harbor, NY. Number 214.

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.

Application of Machine Learning in Snp Discovery - (Peer Reviewed Journal)

Matukumalli, L.K., Grefenstette, J.J., Van Tassell, C.P., Choi, I., Cregan, P.B. 2006. Application of machine learning in SNP discovery. BMC Bioinformatics. 6(7):4.

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.

Detection of Quantitative Trait Loci Influencing Conformation Traits and Calving Ease in Holstein-Friesian Cattle - (Peer Reviewed Journal)

Ashwell, M.S., Heyen, D.W., Sonstegard, T.S., Van Tassell, C.P., Ron, M., Weller, J.I., Lewin, H.A. 2005. Detection of quantitative trait loci influencing conformation traits and calving ease in holstein-friesian cattle. Journal of Dairy Science. 88(11):4111-4119.

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.

Optimizing Bovine Snp Discovery Efforts - (Abstract)

Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2005. Optimizing bovine SNP discovery efforts [abstract]. Recomb2005. p. 227.

Application of Machine Learning Programs Towards Accelerating Polymorphisms Discovery - (Abstract)

Matukumalli, L.K., Grefenstette, J.J., Van Tassell, C.P., Choii, I., Cregan, P.B. 2004. Application of machine learning programs towards accelerating polymorphisms discovery [abstract]. 7th Annual Conference on Computational Genomics. p. 30.

Development of Algorithms for Prediction and Validation of Polymorphisms in Polyploids (Soybean) Using Est Data - (Abstract)

Matukumalli, L.K., Grefenstette, J.J., Van Tassell, C.P., Choii, I., Cregan, P.B. 2004. Development of algorithms for prediction and validation of polymorphisms in polyploids (soybean) using EST data [abstract]. TIGR's Sixteenth International Genome Sequencing and Analysis Conference. p. 33.

In Silico Prediction and Validation of Polymorphisms in Soybean Genome Using Est Data - (Abstract)

Matukumalli, L.K., Grefenstette, J.J., Van Tassell, C.P., Choii, I., Cregan, P.B. 2004. In silico prediction and validation of polymorphisms in soybean genome using est data. BARC Poster Day.