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 Animal Genomics and Improvement Laboratory: Beltsville, MD
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ARS Home Northeast Area Beltsville, Maryland (BARC) Beltsville Agricultural Research Center Animal Genomics and Improvement Laboratory People & Locations







Curtis P Van Tassell

(Curt)
                        Animal Genomics and Improvement Laboratory

                        




                        
                        Research Geneticist (Animals)
                        Phone: (301) 504-6501
                        
                        
                        Fax: (301) 504-8414(Employee information on this page comes from the REE Directory. Please contact your front office staff to update the REE Directory.)
                            ProjectsAccelerating Genetic Improvement of Ruminants Through Enhanced Genome Assembly, Annotation, and Selection
                                                    In-House Appropriated
                                                                    (D)Accession Number: 442481Increasing Accuracy of Genomic Prediction, Developing Algorithms, Selecting Markers, and Evaluating New Traits to Improve Dairy Cattle
                                                    In-House Appropriated
                                                                    (D)Accession Number: 442491**Publications**
                                                (Clicking on the reprint icon
                                                    Reprint Icon
                                                    will take you to the publication reprint.)Large-sample genome-wide association study of resistance to retained placenta in U.S. Holstein cows
                                                        

- (Peer Reviewed Journal)Prakapenka, D., Liang, Z., Zaabza, H.B., Van Raden, P.M., Van Tassell, C.P., Da, Y. 2024. Large-sample genome-wide association study of resistance to retained placenta in U.S. Holstein cows. International Journal of Molecular Sciences. 25(10):5551. https://doi.org/10.3390/ijms25105551.A million-cow validation of a chromosome 14 region interacting with all chromosomes for fat percentage in U.S. Holstein cows
                                                        

- (Peer Reviewed Journal)Prakapenka, D., Liang, Z., Zaabza, H.B., Jiang, J., Ma, L., Van Raden, P.M., Van Tassell, C.P., Da, Y. 2024. A million-cow validation of a chromosome 14 region interacting with all chromosomes for fat percentage in U.S. Holstein cows. International Journal of Molecular Sciences. 25:674. https://doi.org/10.3390/ijms25010674.Current challenges and future of agricultural genomes to phenomes in the USA
                                                        

- (Peer Reviewed Journal)Tuggle, C.K., Clarke, J.L., Murdoch, B.M., Lyons, E., Scott, N.M., Mckay, S., Lipka, A., Fulton, J., Hess, A., Lubberstedt, T., Fragomeni, B., Rowan, T., Mccarthy, F., Guadagno, C., Goddard, E., Das Choudhury, S., Sheehan, M., Kramer, L., Feldman, M.J., Daigle, C., Steibel, J.P., Benes, B., Murray, S., Riggs, P., Thompson, A., Hagen, D., Thornton-Kurth, K., Van Tassell, C.P., Campbell, J.D., Dorea, J., Chung, H., Dekkers, J.C., Ertl, D., Lawrence-Dill, C.A., Schnable, P.S. 2024. Current challenges and future of agricultural genomes to phenomes in the USA. Genome Biology. 25:8. https://doi.org/10.1186/s13059-023-03155-w.Participatory investigation of goat farmers’ breeding practices, trait preference, and selection criteria in Burkina Faso
                                                        

- (Peer Reviewed Journal)Badjibassa, A., Ouedraogo, D., Burger, P.A., Rosen, B.D., Van Tassell, C.P., Solkner, J., Soudre, A. 2024. Participatory investigation of goat farmers’ breeding practices, trait preference, and selection criteria in Burkina Faso. Tropical Animal Health and Production. 56:35. https://doi.org/10.1007/s11250-023-03869-w.Updating test-day milk yield factors for use in genetic evaluations and dairy production systems: A comprehensive review
                                                        

- (Peer Reviewed Journal)Wu, X.-L., Wiggans, G.R., Norman, H.D., Caputo, M., Miles, A.M., Van Tassell, C.P., Baldwin, R.L., Sievert, S., Mattison, J., Burchard, J., Durr, J. 2023. Updating test-day milk yield factors for use in genetic evaluations and dairy production systems: A comprehensive review. Frontiers in Genetics. 14:1298114. https://doi.org/10.3389/fgene.2023.1298114.The African Goat Improvement Network: A scientific group empowering smallholder farmers
                                                        

- (Peer Reviewed Journal)Van Tassell, C.P., Rosen, B.D., Woodward Greene, M.J., Silverstein, J., Huson, H.J., Solkner, J., Boettcher, P., Rothschild, M.F., Meszaros, G., Nakimbugwe, H., Gondwe, T., Muchadeyi, F.C., Nandolo, W., Mulindwa, H.A., Banda, L.J., Kaumbata, W., Getachew, T., Haile, A., Soudre, A., Ouedraogo, D., Rischkowsky, B.A., Mwai, A.O., Dzomba, E.F., Nash, O., Abegaz, S., Masiga, C.W., Wurzinger, M., Sayre, B.L., Stella, A., Tosser-Klopp, G., Sonstegard, T.S. 2023. The African Goat Improvement Network: A scientific group empowering smallholder farmers. Frontiers in Genetics. 14:1183240. https://doi.org/10.3389/fgene.2023.1183240.Using the community-based breeding program (CBBP) model as a collaborative platform to develop the African Goat Improvement Network—Image collection protocol (AGIN-ICP) with mobile technology for data collection
                                                        

- (Peer Reviewed Journal)Woodward Greene, M.J., Kinser, J.M., Huson, H.J., Sonstegard, T.S., Solkner, J., Vaisman, I.I., Boettcher, P., Masiga, C., Mukasa, C., Abegaz, S., Agaba, M., Ahmed, S.S., Fridolin, M., Getachew, T., Gondowe, T., Haile, A., Hassan, Y., Kihara, A., Kouriba, A., Mruttu, H.A., Mujibi, D., Nandolo, W., Rischkowsky, B., Rosen, B.D., Sayre, B., Van Tassell, C.P. 2023. Using the community-based breeding program (CBBP) model as a collaborative platform to develop the African Goat Improvement Network—Image collection protocol (AGIN-ICP) with mobile technology for data collection and management of livestock phenotypes. Frontiers in Genetics. 14:1200770. https://doi.org/10.3389/fgene.2023.1200770.Cross-cutting concepts to transform agricultural research
                                                        

- (Peer Reviewed Journal)Boyd, A., Luo, Y., Lunney, J.K., Kustas, B., Fukagawa, N.K., Mattoo, A.K., Crow, W.T., Pachepsky, Y.A., Kim, M.S., Lillehoj, H.S., Van Tassell, C.P., Zhang, H.Q., Blomberg, L., Dubey, J.P. 2023. Cross-cutting concepts to transform agricultural research. Frontiers in Sustainable Food Systems. 7. Article e1242665. https://doi.org/10.3389/fsufs.2023.1242665.Estimating test day milk yields by modeling proportional daily yields: Going beyond linearity
                                                        

- (Peer Reviewed Journal)Wu, X., Wiggans, G.R., Norman, H.D., Enzenauer, H.A., Miles, A.M., Van Tassell, C.P., Baldwin, R.L., Burchard, J., Durr, J. 2023. Estimating test day milk yields by modeling proportional daily yields: Going beyond linearity. Journal of Dairy Science. 106(12):8979-9005. https://doi.org/10.3168/jds.2023-23479.Morphometric characterization of local goat breeds in two agroecological zones of Burkina Faso, West Africa
                                                        

- (Peer Reviewed Journal)Akounda, B., Ouedraogo, D., Soudre, A., Burger, P.A., Rosen, B.D., Van Tassell, C.P., Solkner, J. 2023. Morphometric characterization of local goat breeds in two agroecological zones of Burkina Faso, West Africa. Animals. 13(12):1931. https://doi.org/10.3390/ani13121931.Characterization of additive, dominance, and runs of homozygosity effects inbreeds of dairy cattle

- (Abstract Only)Ben Zaabza, H., Neupane, M., Jaafar, M., Srikanth, K., Mckay, S., Miles, A.M., Stranden, I., Huson, H.J., Blackburn, H.D., Van Tassell, C.P. 2023. Characterization of additive, dominance, and runs of homozygosity effects inbreeds of dairy cattle [abstract]. European Association of Animal Production Proceedings. p. 806.Get test-day milk yields right: what have we learned?

- (Abstract Only)Wu, X., Wiggans, G.R., Norman, H.D., Enzenaur, H.A., Miles, A.M., Van Tassell, C.P., Baldwin, R.L., Sievert, S.J., Mattison, J., Burchard, J., Durr, J. 2023. Get test-day milk yields right: What have we learned? [abstract]. Journal of Dairy Science. 106(Suppl. 1):154(abstr. 2624).Does modeling causal relationships improve the accuracy of estimating lactation milk yields?
                                                        

- (Peer Reviewed Journal)Wu, X., Miles, A.M., Van Tassell, C.P., Wiggans, G.R., Norman, H.D., Baldwin, R.L., Burchard, J., Durr, J. 2023. Does modeling causal relationships improve the accuracy of estimating lactation milk yields? Journal of Dairy Science Communications. https://doi.org/10.3168/jdsc.2022-0343.Characterization and localization of within and across breed as indications of inbreeding depression and heterosis

- (Abstract Only)Invited review: Reliability computation from the animal model era to the single-step genomic model era
                                                        

- (Peer Reviewed Journal)Zaabza, H.B., Van Tassell, C.P., Vandenplas, J., Van Raden, P.M., Liu, Z., Eding, H., Mckay, S., Haugaard, K., Lidauer, M.H., Mäntysaari, E.A., Strandén, I. 2023. Invited review: Reliability computation from the animal model era to the single-step genomic model era. Journal of Dairy Science. 106(3):1518–1532. https://doi.org/10.3168/jds.2022-22629.Characterization and localization within and across breed measures of dominance as observed in inbreeding depression and heterosis

- (Abstract Only)An exponential regression model to estimate daily milk yields

- (Proceedings)Wu, X.-L., Wiggans, G.R., Norman, H.D., Miles, A.M., Van Tassell, C.P., Baldwin, R.L., Burchard, J., Durr, J. 2022. An exponential regression model to estimate daily milk yields. Interbull Bulletin. 57:67-73.Daily milk yield correction factors: what are they?
                                                        

- (Peer Reviewed Journal)Wu, X., Wiggans, G.R., Norman, H.D., Miles, A.M., Van Tassell, C.P., Baldwin, R.L., Burchard, J., Durr, J. 2022. Daily milk yield correction factors: what are they? Journal of Dairy Science Communications. https://doi.org/10.3168/jdsc.2022-0230.Changes in genetic trends in US dairy cattle since the implementation of genomic evaluations
                                                        

- (Peer Reviewed Journal)Guinan, F.L., Wiggans, G.R., Norman, H.D., Durr, J.W., Cole, J.B., Van Tassell, C.P., Misztal, I., Lourenco, D. 2023. Changes in genetic trends in US dairy cattle since the implementation of genomic evaluations. Journal of Dairy Science. 106(2):1110–1129. https://doi.org/10.3168/jds.2022-22205.Assembly of a pangenome for global cattle reveals missing sequences and novel structural variations, providing new insights into their diversity and evolutionary history
                                                        

- (Peer Reviewed Journal)Zhou, Y., Yang, L., Han, X., Han, J., Hu, Y., Li, F., Xia, H., Peng, L., Boschiero, C., Rosen, B.D., Bickhart, D.M., Zhang, S., Guo, A., Van Tassell, C.P., Smith, T.P., Yang, L., Liu, G. 2022. Assembly of a pangenome for global cattle reveals missing sequences and novel structural variations, providing new insights into their diversity and evolutionary history. Genome Research. 32(8):1585-1601. https://doi.org/10.1101/gr.276550.122.A multi-tissue atlas of regulatory variants in cattle
                                                        

- (Peer Reviewed Journal)Liu, S., Gao, Y., Canela-Xandri, O., Wang, S., Yu, Y., Cai, W., Li, B., Pairo-Castineira, E., D'Mellow, K., Rawlik, K., Xia, C., Yao, Y., Li, X., Yan, Z., Li, C., Rosen, B.D., Van Tassell, C.P., Van Raden, P.M., Zhang, S., Ma, L., Cole, J.B., Liu, G., Tenesa, A., Fang, L. 2022. A multi-tissue atlas of regulatory variants in cattle. Nature Genetics. 54(9):1438-1447. https://doi.org/10.1038/s41588-022-01153-5.Statistical methods revisited for estimating daily milk yields: how well do they work?
                                                        

- (Peer Reviewed Journal)Wu, X., Wiggans, G.R., Norman, H.D., Miles, A.M., Van Tassell, C.P., Baldwin, R.L., Burchard, J., Durr, J. 2022. Statistical methods revisited for estimating daily milk yields: how well do they work? Frontiers in Genetics. 13:943705. https://doi.org/10.3389/fgene.2022.943705.Inbreeding and effective population size of United States Katahdin sheep
                                                        

- (Proceedings)Becker, G., Burke, J.M., Lewis, R.M., Miller, J.E., Morgan, J.L., Rosen, B.D., Van Tassell, C.P., Notter, D.R., Murdoch, B.M. 2023. Inbreeding and effective population size of United States Katahdin sheep. World Congress of Genetics Applied in Livestock Production. https://doi.org/10.3920/978-90-8686-940-4_706.Impact of breed ancestry on the performance of crossbred dairy cattle
                                                        

- (Proceedings)Jaafar, M.A., Heins, B.J., Dechow, C., Van Tassell, C.P., Huson, H.J. 2022. Impact of breed ancestry on the performance of crossbred dairy cattle. World Congress of Genetics Applied in Livestock Production. Front Matter, Commun. 181, pp. 777-780. https://doi.org/10.3920/978-90-8686-940-4_181.Genetic diversity and inbreeding in US Jersey population and germplasm collection
                                                        

- (Proceedings)Srikanth, K., Neupane, M., Jaafar, M.A., Wolfe, C.W., Huson, H.J., Van Tassell, C.P., Blackburn, H.D. 2022. Genetic diversity and inbreeding in US Jersey population and germplasm collection. World Congress of Genetics Applied in Livestock Production. Front Matter, Commun. 243, pp. 1029-1032. https://doi.org/10.3920/978-90-8686-940-4_243.Variants within genes EDIL3 and ADGRB3 are associated with divergent fecal egg counts in Katahdin sheep at weaning
                                                        

- (Peer Reviewed Journal)Becker, G.M., Burke, J.M., Lewis, R.M., Miller, J.E., Morgan, J.L., Rosen, B.D., Van Tassell, C.P., Notter, D.R., Murdoch, B. 2022. Variants within genes EDIL3 and ADGRB3 are associated with divergent fecal egg counts in Katahdin sheep at weaning. Frontiers in Genetics. https://doi.org/10.3389/fgene.2022.817319.Genome-wide recombination map construction from single sperm sequencing in cattle
                                                        

- (Peer Reviewed Journal)Yang, L., Gao, Y., Li, M., Park, K., Liu, S., Kang, X., Liu, M., Oswalt, A., Fang, L., Telugu, B.P., Sattler, C.G., Cole, J.B., Seroussi, E., Xu, L., Li, C., Li, L., Zhang, H., Rosen, B.D., Van Tassell, C.P., Ma, L., Liu, G. 2022. Genome-wide recombination map construction from single sperm sequencing in cattle. BMC Genomics. 23(1):181. https://doi.org/10.1186/s12864-022-08415-w.Towards the detection of copy number variation from single sperm sequencing in cattle
                                                        

- (Peer Reviewed Journal)Yang, L., Gao, Y., Oswalt, A., Fang, L., Boschiero, C., Neupane, M., Sattler, C.G., Seroussi, E., Xu, L., Li, C., Li, L., Zhang, H., Rosen, B.D., Van Tassell, C.P., Ma, L., Liu, G. 2022. Towards the detection of copy number variation from single sperm sequencing in cattle. BMC Genomics. 23(1):215. https://doi.org/10.1186/s12864-022-08441-8.VarGoats project: a dataset of 1159 whole-genome sequences to dissect Capra hircus global diversity
                                                        

- (Peer Reviewed Journal)Denoyelle, L., Talouarn, E., Bardou, P., Colli, L., Alberti, A., Danchin, C., Del Corvo, M., Engelen, S., Orvain, C., Palhiere, I., Rupp, R., Sarry, J., Salavati, M., Amills, M., Clark, E., Crepaldi, P., Faraut, T., Masiga, C., Pampanon, F., Rosen, B.D., Stella, A., Van Tassell, C.P., Tosser-Klopp, G., The Vargoats Consortium. 2021. VarGoats project: a dataset of 1159 whole-genome sequences to dissect Capra hircus global diversity. Genetic Selection Evolution. 53:86. https://doi.org/10.1186/s12711-021-00659-6.Detection of copy number variants in African goats using whole genome sequence data
                                                        

- (Peer Reviewed Journal)Nandolo, W., Meszaros, G., Banda, L.J., Gondwe, T.N., Mulindwa, H.A., Nakimbugwe, H.N., Wurzinger, M., Clark, E., Woodward Greene, M.J., Liu, M., Liu, G., Van Tassell, C.P., Rosen, B.D., Solkner, J. 2021. Detection of copy number variants in African goats using whole genome sequence data. BMC Genomics. 22(1):398. https://doi.org/10.1186/s12864-021-07703-1.Single-cell transcriptomic analyses of cattle ruminal epithelial cells before and after weaning
                                                        

- (Peer Reviewed Journal)Gao, Y., Fang, L., Baldwin, R.L., Connor, E.E., Cole, J.B., Van Tassell, C.P., Ma, L., Li, C., Liu, G. 2021. Single-cell transcriptomic analyses of cattle ruminal epithelial cells before and after weaning. Genomics. 113(4):2045-2055. https://doi.org/10.1016/j.ygeno.2021.04.039.A comprehensive catalogue of regulatory variants in the cattle transcriptome

- (Abstract Only)Liu, S., Gao, Y., Canela-Xandri, O., Wang, S., Yu, Y., Cai, W., Li, B., Pairo-Castineira, E., D'Mellow, K., Rawlik, K., Xia, C., Yao, Y., Li, X., Yan, Z., Li, C., Rosen, B.D., Van Tassell, C.P., Van Raden, P.M., Zhang, S., Ma, L., Cole, J.B., Liu, G., Tenesa, A., Fang, L. 2021. A comprehensive catalogue of regulatory variants in the cattle transcriptome [abstract]. Journal of Dairy Science. 104(Suppl. 1):121(abstr. 307).Genomic evaluation of dairy heifer livability
                                                        

- (Peer Reviewed Journal)Neupane, M., Hutchison, J.L., Van Tassell, C.P., Van Raden, P.M. 2021. Genomic evaluation of dairy heifer livability. Journal of Dairy Science. 104(8):8959–8965. https://doi.org/10.3168/jds.2020-19687.Genetic and genomic evaluation of late term abortion recorded through Dairy Herd Improvement test plans

- (Abstract Only)Neupane, M., Hutchison, J.L., Cole, J.B., Van Tassell, C.P., Van Raden, P.M. 2021. Genetic and genomic evaluation of late term abortion recorded through Dairy Herd Improvement test plans [abstract]. Journal of Dairy Science. 104(Suppl 1):77(abstr. 196).Functional variants surrounding endothelin 2 are associated with mycobacterium avium subspecies paratuberculosis infection
                                                        

- (Peer Reviewed Journal)Kiser, J.N., Wang, Z., Zanella, R., Scraggs, E., Neupane, M., Cantrell, B., Van Tassell, C.P., White, S.N., Talor, J.F., Neibergs, H.L. 2021. Functional variants surrounding endothelin 2 are associated with mycobacterium avium subspecies paratuberculosis infection. Frontiers in Veterinary Science. https://doi.org/10.3389/fvets.2021.625323.Experiences from the implementation of community-based goat breeding programs in Malawi and Uganda: a potential approach for conservation and improvement of indigenous small ruminants in smallholder farms
                                                        

- (Peer Reviewed Journal)Kaumbata, W., Nakimbugwe, H.N., Nandolo, W., Banda, L.J., Meszaros, G., Gondwe, T.N., Woodward Greene, M.J., Rosen, B.D., Van Tassell, C.P., S0lkner, J., Wurzinger, M. 2021. Experiences from the implementation of community-based goat breeding programs in Malawi and Uganda: a potential approach for conservation and improvement of indigenous small ruminants in smallholder farms. Sustainability. 13(3):1494. https://doi.org/10.3390/su13031494.Copy number variation analysis reveals variants associated with milk production traits in dairy goats
                                                        

- (Peer Reviewed Journal)Kang, X., Liu, M., Liu, S., Pan, M.G., Li, M., Wiggans, G.R., Van Tassell, C.P., Rosen, B.D., Liu, G. 2020. Copy number variation analysis reveals variants associated with milk production traits in dairy goats. Genomics. 112(6):4934-4937. https://doi.org/10.1016/j.ygeno.2020.09.007.Comparative whole genome DNA methylation profiling of cattle tissues reveals global and tissue-specific methylation patterns
                                                        

- (Peer Reviewed Journal)Zhou, Y., Liu, S., Hu, Y., Fang, L., Gao, Y., Xia, H., Schroeder, S.G., Rosen, B.D., Connor, E.E., Li, C., Baldwin, R.L., Cole, J.B., Van Tassell, C.P., Yang, L., Ma, L., Liu, G. 2020. Comparative whole genome DNA methylation profiling of cattle tissues reveals global and tissue-specific methylation patterns. BMC Biology. 18(1):85. https://doi.org/10.1186/s12915-020-00793-5.Scaling up community-based breeding programmes via multi-stakeholder collaboration
                                                        

- (Peer Reviewed Journal)Kaumbata, W., Nakimbugwe, H.N., Haile, A., Banda, L.J., Meszaros, G., Gondwe, T.N., Woodward Greene, M.J., Rosen, B.D., Van Tassell, C.P., Solkner, J., Wurzinger, M. 2020. Scaling up community-based breeding programmes via multi-stakeholder collaboration. Journal of Agriculture and Rural Development in the Tropics and Subtropics. 12(1):99-112. https://doi.org/10.17170/kobra-202005281298.Comprehensive analyses of 723 transcriptomes enhance biological interpretation and genomic prediction for complex traits in cattle
                                                        

- (Peer Reviewed Journal)Fang, L., Cai, W., Liu, S., Canela-Xandri, O., Gao, Y., Jiang, J., Rawlik, K., Li, B., Schroeder, S.G., Rosen, B.D., Li, C., Sonstegard, T.S., Alexander, L.J., Van Tassell, C.P., Van Raden, P.M., Cole, J.B., Yu, Y., Zhang, S., Tenesa, A., Ma, L., Liu, G. 2019. Comprehensive analyses of 723 transcriptomes enhance biological interpretation and genomic prediction for complex traits in cattle. Genome Research. 30(5):790-801. https://doi.org/10.1101/gr.250704.119.Tangible and intangible benefits of local goats rearing in smallholder farms in Malawi
                                                        

- (Peer Reviewed Journal)Kaumbata, W., Banda, L.J., Meszaros, G., Gondwe, T.N., Woodward Greene, M.J., Rosen, B.D., Van Tassell, C.P., Solkner, J., Wurzinger, M. 2020. Tangible and intangible benefits of local goats rearing in smallholder farms in Malawi. Small Ruminant Research. 87:106095. https://doi.org/10.1016/j.smallrumres.2020.106095.A genetic investigation of Island of Jersey cattle, the foundation of the Jersey breed
                                                        

- (Peer Reviewed Journal)Huson, H.J., Sonstegard, T.S., Godfrey, J., Hambrook, D., Wolfe, C., Wiggans, G.R., Blackburn, H.D., Van Tassell, C.P. 2020. A genetic investigation of Island of Jersey cattle, the foundation of the Jersey breed. Frontiers in Genetics. 11:366. https://doi.org/10.3389/fgene.2020.00366.A genetic investigation of island Jersey cattle, the foundation of the Jersey breed: Comparing population structure and selection to Guernsey, Holstein, and United States Jersey cattle
                                                        

- (Peer Reviewed Journal)De novo assembly of the cattle reference genome with single-molecule sequencing
                                                        

- (Peer Reviewed Journal)Rosen, B.D., Bickhart, D.M., Schnabel, R.D., Koren, S., Elsik, C.G., Tseng, E., Rowan, T.N., Low, W.Y., Zimin, A., Couldrey, C., Hall, R., Li, W., Rhie, A., Ghurye, J., McKay, S.D., Thibaud-Nissen, F., Hoffman, J., Murdoch, B.M., Snelling, W.M., McDaneld, T.G., Hammond, J.A., Schwartz, J.C., Nandolo, W., Hagen, D.E., Dreischer, C., Schultheiss, S.J., Schroeder, S.G., Phillippy, A.M.,Cole, J.B., Van Tassell, C.P., Liu, G., Smith, T.P.L., Medrano, J.F. 2020. De novo assembly of the cattle reference genome with single-molecule sequencing. GigaScience. 9(3):1-9. https://doi.org/10.1093/gigascience/giaa021.Signatures of selection and environmental adaptation across the goat genome post-domestication
                                                        

- (Peer Reviewed Journal)Bertolini, F., Servin, B., Talenti, A., Rochat, E., Kim, E., Oget, C., Palhiere, I., Crisa, A., Catillo, G., Steri, R., Amills, M., Colli, L., Marras, G., Milanesi, M., Nicolazzi, E., Rosen, B.D., Van Tassell, C.P., Guldbrandtsen, B., Sonstegard, T.S., Tosser-Klopp, G., Stella, A., Rothschild, M.F., Joost, S., Crepaldi, P. 2018. Signatures of selection and environmental adaptation across the goat genome post-domestication. Genetic Selection Evolution. 50:57. https://doi.org/10.1186/s12711-018-0421-y.Genome-wide CNV analysis revealed variants associated with growth traits in African indigenous goats
                                                        

- (Peer Reviewed Journal)Liu, M., Woodward Greene, M.J., Kang, X., Pan, M.G., Rosen, B.D., Van Tassell, C.P., Chen, H., Liu, G. 2020. Genome-wide CNV analysis revealed variants associated with growth traits in African indigenous goats. Genomics. 112(2):1477-1480. https://doi.org/10.1016/j.ygeno.2019.08.018.Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation
                                                        

- (Peer Reviewed Journal)Bickhart, D.M., Watson, M., Koren, S., Panke-Buisse, K., Cersosimo, L.M., Press, M.O., Van Tassell, C.P., Van Kessel, J.S., Haley, B.J., Kim, S., Heiner, C., Suen, G., Bakshy, K., Liachko, I., Sullivan, S.T., Myer, P.R., Ghurye, J., Pop, M., Weimer, P., Phillippy, A., Smith, T.P. 2019. Assignment of virus and antimicrobial resistance genes to microbial hosts in a complex microbial community by combined long-read assembly and proximity ligation. Genome Biology. 20:153. https://doi.org/10.1186/s13059-019-1760-x.Timing and extent of inbreeding in African goats
                                                        

- (Peer Reviewed Journal)Nandolo, W., Meszaros, G., Banda, L.J., Gondwe, T.N., Lamuno, D., Mulindwa, H., Nakimbugwe, H.N., Wurzinger, M., Utsunomiya, Y.T., Woodward Greene, M.J., Liu, M., Liu, G., Van Tassell, C.P., Curik, I., Rosen, B.D., Solkner, J. 2019. Timing and extent of inbreeding in African goats. Frontiers in Genetics. 10:57. https://doi.org/10.3389/fgene.2019.00537.Integrating signals from sperm methylome analysis and genome-wide association study for a better understanding of male fertility in cattle
                                                        

- (Peer Reviewed Journal)Fang, L., Zhou, Y., Liu, S., Jiang, J., Bickhart, D.M., Null, D.J., Li, B., Schroeder, S.G., Rosen, B.D., Cole, J.B., Van Tassell, C.P., Ma, L., Liu, G. 2019. Integrating signals from sperm methylome analysis and genome-wide association study for a better understanding of male fertility in cattle. Epigenomes. 3(2):10. https://doi.org/10.3390/epigenomes3020010.Genome to Phenome: Improving animal health, production, and well-being: A new USDA blueprint for animal genome research 2018–2027
                                                        

- (Peer Reviewed Journal)Rexroad III, C.E., Vallet, J.L., Matukumalli, L.K., Ernst, C., Van Tassell, C.P., Cheng, H.H., Reecy, J., Fulton, J., Taylor, J., Lunney, J.K., Liu, J., Cockett, N., Smith, T.P., Van Eenennaam, A., Clutter, A., Telugu, B., Purcell, C., Bickhart, D.M., Blackburn, H.D., Neibergs, H., Wells, K., Boggess, M.V., Sonstegard, T. 2019. Genome to phenome: improving animal health, production, and well-being: a new USDA blueprint for animal genome research 2018–2027. Frontiers in Genetics. 10:327. https://doi.org/10.3389/fgene.2019.00327.Defining the optimal period length and stage of growth or lactation to estimate residual feed intake in dairy cows
                                                        

- (Peer Reviewed Journal)Connor, E.E., Hutchison, J.L., Van Tassell, C.P., Cole, J.B. 2019. Defining the optimal period length and stage of growth or lactation to estimate residual feed intake in dairy cows. Journal of Dairy Science. 102(7):6131–6143. https://doi.org/10.3168/jds.2018-15407.Comparative analyses of sperm DNA methylomes among human, mouse and cattle provide insights into epigenomic evolution and complex traits
                                                        

- (Peer Reviewed Journal)Fang, L., Zhou, Y., Liu, S., Jiang, J., Bickhart, D.M., Null, D.J., Li, B., Schroeder, S.G., Rosen, B.D., Cole, J.B., Van Tassell, C.P., Ma, L., Liu, G. 2019. Comparative analyses of sperm DNA methylomes among human, mouse and cattle provide insights into epigenomic evolution and complex traits. Epigenetics. 14(3):260-276. https://doi.org/10.1080/15592294.2019.1582217.Genome changes due to artificial selection in U.S. Holstein cattle
                                                        

- (Peer Reviewed Journal)Ma, L., Sonstegard, T.S., Cole, J.B., Van Tassell, C.P., Wiggans, G.R., Crooker, B.A., Tan, C., Prakapenka, D., Liu, G., Da, Y. 2019. Genome changes due to artificial selection in U.S. Holstein cattle. BMC Genomics. 20:128. https://doi.org/10.1186/s12864-019-5459-x.Computational detection and experimental validation of segmental duplications and associated copy number variations in water buffalo (Bubalus bubalis)
                                                        

- (Peer Reviewed Journal)Liu, S., Kang, X., Catacchio, C.R., Liu, M., Fang, L., Schroeder, S.G., Li, W., Rosen, B.D., Iamartino, D., Iannuzzi, L., Sonstegard, T.S., Van Tassell, C.P., Ventura, M., Low, W., Williams, J.L., Bickhart, D.M., Liu, G. 2019. Computational detection and experimental validation of segmental duplications and associated copy number variations in water buffalo (Bubalus bubalis). Functional and Integrative Genomics. 19(3):409–419. https://doi.org/10.1007/s10142-019-00657-4.AdaptMap: Exploring goat diversity and adaptation
                                                        

- (Peer Reviewed Journal)Stella, A., Nicolazzi, E.L., Van Tassell, C.P., Rothschild, M., Colli, L., Rosen, B.D., Sonstegard, T.S., Crepaldi, P., Tosser, G., Joost, S., Adaptmap Consortium. 2018. AdaptMap: Exploring goat diversity and adaptation. Genetic Selection Evolution. 50:61. https://doi.org/10.1186/s12711-018-0427-5.Genome-wide SNP profiling of worldwide goat populations reveals a strong partitioning of diversity and highlights post-domestication migration routes
                                                        

- (Peer Reviewed Journal)Colli, L., Milanesi, M., Talenti, A., Bertolini, F., Chen, M., Crisa, A., Daly, K., Del Corvo, M., Guldbrandtsen, B., Lenstra, J.A., Rosen, B.D., Vajana, E., Catillo, G., Joost, S., Nicolazzi, E., Rochat, E., Rothschild, M.F., Servin, B., Sonstegard, T.S., Steri, R., Van Tassell, C.P., Ajmone-Marsan, P., Crepaldi, P., Stella, A. 2018. Genome-wide SNP profiling of worldwide goat populations reveals a strong partitioning of diversity and highlights post-domestication migration routes. Genetic Selection Evolution. 50:58. https://doi.org/10.1186/s12711-018-0422-x.Diversity of copy number variation in the worldwide goat population
                                                        

- (Peer Reviewed Journal)Liu, M., Zhou, Y., Rosen, B.D., Van Tassell, C.P., Stella, A., Tosser, G., Rupp, R., Palhiere, I., Colli, L., Sayre, B., Crepaldi, P., Fang, L., Meszaros, G., Chen, H., Liu, G., Adaptmap Consortium. 2018. Diversity of copy number variation in the worldwide goat population. Heredity. 122:636–646. https://doi.org/10.1038/s41437-018-0150-6.Misidentification of runs of homozygosity islands in cattle caused by interference with copy number variation or large intermarker distances
                                                        

- (Peer Reviewed Journal)Nandolo, W., Utsunomiya, Y.T., Meszaros, G., Wurzinger, M., Khayadzadeh, N., Torrecilha, R.B., Mulindwa, H., Gondwe, T., Waldmann, P., Ferencakovic, M., Garcia, J.F., Rosen, B.D., Bickhart, D.M., Van Tassell, C.P., Curik, I., Solkner, J. 2018. Misidentification of runs of homozygosity islands in cattle caused by interference with copy number variation or large intermarker distances. Genetic Selection Evolution. 50(1):43. https://doi.org/10.1186/s12711-018-0414-x.Predicting live weight of rural African goats using body measurements

- (Peer Reviewed Journal)Chinchilla-Vargasa, J., Woodward Greene, M.J., Van Tassell, C.P., Masiga, C.W., Rothschild, M.F. 2018. Predicting live weight of rural African goats using body measurements. Livestock Research for Rural Development. 30(7):123.Comparative whole genome DNA methylation profiling of cattle sperm and somatic tissues reveals striking hypomethylated patterns in sperm
                                                        

- (Peer Reviewed Journal)Zhou, Y., Connor, E.E., Bickhart, D.M., Li, C., Baldwin, R.L., Schroeder, S.G., Rosen, B.D., Yang, L., Van Tassell, C.P., Liu, G. 2018. Comparative whole genome DNA methylation profiling of cattle sperm and somatic tissues reveals striking hypomethylated patterns in sperm. Gigascience. 7(5):1-13. https://doi.org/10.1093/gigascience/giy039.Evaluation framework of community-based livestock breeding programs

- (Peer Reviewed Journal)Lamuno, D., Solkner, J., Mészáros, G., Nakimbugwe, H., Mulindwa, H., Nandolo, W., Gondwe, T., Van Tassell, C.P., Gutierrez, G., Mueller, J., Wurzinger, M. 2018. Evaluation framework of community-based livestock breeding programs. Livestock Research for Rural Development. 30(3):47.Impact of genomic selection on genetic gain of Net Merit of US dairy cattle

- (Proceedings)Ruiz-Lopez, F.J., Garcia-Ruiz, A., Cole, J.B., Van Raden, P.M., Wiggans, G.R., Van Tassell, C.P. 2018. Impact of genomic selection on genetic gain of Net Merit of US dairy cattle. World Congress of Genetics Applied in Livestock Production. Auckland, New Zealand, Feb. 11-16, Vol. Electron. Poster Sess.–Biol. & Species–Bovine (dairy) 2, p. 710.Long-read sequencing enables the accurate annotation of immune gene clusters in goat

- (Abstract Only)Meta-analysis of genome wide association studies for the stature of cattle reveals numerous common genes that regulate size in mammals
                                                        

- (Peer Reviewed Journal)Bouwman, A.C., Daetwyler, H.D., Chamberlain, A.J., Ponce, C.H., Sargolzaei, M., Schenke, F.S., Sahana, G., Govignon-Gion, A., Boitard, S., Dolezal, M., Pausch, H., Brondum, R., Bowman, P.J., Thomsen, B., Guldbrandtsen, B., Lund, M.S., Servin, B., Garrick, D.J., Reecy, J., Vilkki, J., Bagnato, A., Wang, M., Hoff, J.L., Schnabel, R.D., Taylor, J.F., Vinkhuyzen, A.A., Panitz, F., Bendixen, C., Holm, L., Gredler, B., Hoze, C., Boussaha, M., Sanchez, M., Rocha, D., Capitan, A., Tribout, T., Barbat, A., Croiseau, P., Drogemuller, C., Jagannathan, V., Jagt, C.V., Crowley, J.J., Intergenomics, C., Bieber, A., Purfield, D.C., Berry, D.P., Emmerling, R., Gotz, K., Frischknecht, M., Russ, I., Solkner, J., Van Tassell, C.P., Fries, R., Stothard, P., Veerkamp, R.F., Boichard, D., Goddard, M., Hayes, B.J. 2018. Meta-analysis of genome wide association studies for the stature of cattle reveals numerous common genes that regulate size in mammals. Nature Genetics. 50(3):362-367. https://doi.org/10.1038/s41588-018-0056-5.A haplotype spanning PLAG1 contributed to stature recovery in modern cattle
                                                        

- (Peer Reviewed Journal)Utsunomiya, Y., Milanesi, M., Utsunomiya, A., Torrecilha, R., Kim, E., Silva, M., Do Carmo, A.S., Carvalheiro, R., De Rezende Neves, H.H., Padula, R., Sussai, T., Zavarez, L.B., Cipriano, R.S., Caminhas, M., Hambrecht, G., Colli, L., Eufemi, E., Ajmone-Marsan, P., Buora, M., Liu, G., Bickhart, D.M., Van Tassell, C.P., Solkner, J., Sonstegard, T.S., Garcia, J.F. 2017. A haplotype spanning PLAG1 contributed to stature recovery in modern cattle. Scientific Reports. 7(1):17140. https://doi.org/10.1038/s41598-017-17127-1.Genome-wide sequencing and comparative profiling of cattle sperm DNA methylome reveals its hypomethylated patterns

- (Abstract Only)Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis)
                                                        

- (Peer Reviewed Journal)Iamartino, D., Nicolazzi, E.L., Van Tassell, C.P., Reecy, J.M., Fritz-Waters, E.R., Koltes, J.E., Biffani, S., Sonstegard, T., Schroeder, S.G., Ajmone-Marsan, P., Negrini, R., Pasquariello, R., Ramelli, P., Coletta, A., Garcia, J.F., Ali, A., Ramunno, L., Cosenza, G., De Oliveira, D.A., Drummond, M.G., Bastianetto, E., Davassi, A., Pirani, A., Brew, F., Williams, J.L. 2017. Design and validation of a 90K SNP genotyping assay for the water buffalo (Bubalus bubalis). PLoS One. 12(10): e0185220. https://doi.org/10.1371/journal.pone.0185220.Design and validation of a 90K SNP genotyping assay for the Water Buffalo (Bubalus bubalis)

- (Peer Reviewed Journal)Whole genome structural analysis of Caribbean hair sheep reveals quantitative link to West African ancestry
                                                        

- (Peer Reviewed Journal)Spangler, G.L., Rosen, B.D., Iiori, M.B., Hanotte, O., Kim, E.S., Sonstegard, T.S., Burke, J.M., Morgan, J.L., Notter, D.R., Van Tassell, C.P. 2017. Whole genome structural analysis of Caribbean hair sheep reveals quantitative link to West African ancestry. PLoS One. 12(6):e0179021.Signatures of selection for environmental adaptation and zebu × taurine hybrid fitness in East African shorthorn zebu

- (Peer Reviewed Journal)Bahbahani, H., Tijjani, A., Mukasa, C., Wragg, D., Almathen, F., Nash, O., Akpa, G., Mbole-Kariuki, M., Malla, S., Woolhouse, M., Sonstegard, T.S., Van Tassell, C.P., Blythe, M., Huson, H.J., Hanotte, O. 2017. Signatures of selection for environmental adaptation and zebu × taurine hybrid fitness in East African Shorthorn Zebu. Frontiers in Genetics. 8:68.Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes

- (Peer Reviewed Journal)Bickhart, D.M., Rosen, B.D., Koren, S., Sayre, B.L., Hastie, A.R., Chan, S., Lee, J., Lam, E.T., Liachko, I., Sullivan, S.T., Burton, J., Huson, H.J., Kelley, C.M., Hutchison, J.L., Zhou, Y., Sun, J., Crisa, A., Ponce De Leon, F.A., Schwartz, J.C., Hammond, J.A., Waldbieser, G.C., Schroeder, S.G., Liu, G., Dunham, M., Shendure, J., Sonstegard, T.S., Phillippy, A.M., Van Tassell, C.P., Smith, T.P. 2017. Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes. Nature Genetics. 49(4):643-650.Systematic profiling of bovine short tandem repeats using whole genome sequencing data

- (Peer Reviewed Journal)Xu, L., Haasl, R.J., Sun, J., Zhou, Y., Bickhart, D.M., Son, J., Van Tassell, C.P., Lwein, H.A., Liu, G. 2016. Systematic profiling of bovine short tandem repeats using whole genome sequencing data. Genome Biology and Evolution. 9(1):20-31.Reduced representation bisulphite sequencing of the cattle genome reveals DNA methylation patterns

- (Peer Reviewed Journal)Zhou, Y., Xu, L., Bickhart, D.M., Hay, E., Schroeder, S.G., Connor, E.E., Leeson, A.J., Sonstegard, T., Van Tassell, C.P., Hong, C., Liu, G. 2016. Reduced representation bisulphite sequencing of the cattle genome reveals DNA methylation patterns. BMC Genomics. 17(1):779.Comparative analyses across cattle breeds reveal the pitfalls caused by artificial and lineage-differential copy number variations

- (Peer Reviewed Journal)Zhou, Y., Utsunomiya, Y.T., Xu, L., Hay, E.A., Bickhart, D.M., Carvalheiro, R., Neves, H.H., Van Tassell, C.P., Sonstegard, T.S., Garcia, J., Liu, G. 2016. Comparative analyses across cattle breeds reveal the pitfalls caused by artificial and lineage-differential copy number variations. Scientific Reports. 6:29219.Changes in genetic selection differentials and generation intervals in US dairy cattle as a result of genomic selection

- (Peer Reviewed Journal)Garcia, A., Cole, J.B., Van Raden, P.M., Wiggans, G.R., Ruiz, F., Van Tassell, C.P. 2016. Changes in genetic selection differentials and generation intervals in US dairy cattle as a result of genomic selection. Proceedings of the National Academy of Sciences. 113:E3995–E4004.Reduced representation bisulphite sequencing of the ten bovine somatic tissues reveals DNA methylation patterns

- (Abstract Only)Zhou, Y., Xu, L., Hay, E., Bickhart, D.M., Sonstegard, T., Van Tassell, C.P., Chen, H., Liu, G. 2016. Reduced representation bisulphite sequencing of the ten bovine somatic tissues reveals DNA methylation patterns [abstract]. In: Proceedings of 2016 BARC Poster Day, April 27, 2016, Beltsville, Maryland. P63.Axiom turkey genotyping array

- (Other)Identification of a nonsense mutation in APAF1 that is likely causal for a decrease in reproductive efficiency in Holstein dairy cattle

- (Peer Reviewed Journal)Adams, H.A., Sonstegard, T.S., Van Raden, P.M., Null, D.J., Van Tassell, C.P., Larkin, D.M., Lewin, H.A. 2016. Identification of a nonsense mutation in APAF1 that is likely causal for a decrease in reproductive efficiency in Holstein dairy cattle. Journal of Dairy Science. 99(8):6693-6701.Calculation of genomic predicted transmitting abilities for bovine respiratory disease complex in Holsteins

- (Abstract Only)Van Tassell, C.P., Spangler, G.L., Bickhart, D.M., Wiggans, G.R., Cole, J.B., Taylor, J.F., Neibergs, H.L., Seabury, C., Van Eenennaam, A.L., Womack, J.E., Brd Consortium 2016. Calculation of genomic predicted transmitting abilities for bovine respiratory disease complex in Holsteins. Journal of Dairy Science. 99(E-Suppl. 1)/Journal of Animal Science. 94(E-Suppl. 5):133(abstr. 0288).Exploring the feasibility of using copy number variants as genetic markers through large-scale whole genome sequencing experiments

- (Abstract Only)Bickhart, D.M., Xu, L., Hutchison, J.L., Cole, J.B., Null, D.J., Schroeder, S.G., Song, J., Garcia, J.F., Sonstegardq, T.S., Van Tassell, C.P., Schnabel, R.D., Taylor, J.F., Lewin, H.A., Liu, G. 2016. Exploring the feasibility of using copy number variants as genetic markers through large-scale whole genome sequencing experiments. Journal of Dairy Science. 99(E-Suppl. 1)/Journal of Animal Science. 94(E-Suppl. 5):142(abstr. 0306).Genetic determinants of resistance to gastrointestinal nematodes in ruminants

- (Review Article)Benevides, M., Sonstegard, T., Van Tassell, C.P. 2016. Genetic determinants of resistance to gastrointestinal nematodes in ruminants. Trends in Parasitology. 32(6):470-480.Whole-genome sequencing reveals the diversity of cattle copy number variations and multicopy genes

- (Peer Reviewed Journal)Bickhart, D.M., Xu, L., Hutchison, J.L., Cole, J.B., Schroeder, S.G., Song, J., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Lewin, H.A., Liu, G. 2016. Whole-genome sequencing reveals the diversity of cattle copy number variations and multicopy genes. DNA Research. 23(3):253-62.Population-genetic properties of differentiated copy number variations in cattle

- (Peer Reviewed Journal)Xu, L., Hou, Y., Bickhart, D.M., Zhou, Y., Hay, E.A., Song, J., Sonstegard, T., Van Tassell, C.P., Liu, G. 2016. Population-genetic properties of differentiated copy number variations in cattle. Scientific Reports. 6:23161.Increasing the number of single nucleotide polymorphisms used in genomic evaluation of dairy cattle

- (Peer Reviewed Journal)Wiggans, G.R., Cooper, T.A., Van Raden, P.M., Van Tassell, C.P., Bickhart, D.M., Sonstegard, T.S. 2016. Increasing the number of single nucleotide polymorphisms used in genomic evaluation of dairy cattle. Journal of Dairy Science. 99(6):4504-4511.Genome-wide CNV analysis reveals variants associated with growth traits in Bos indicus

- (Peer Reviewed Journal)Zhou, Y., Utsunomiya, Y.T., Xu, L., Hay, E.A., Bickhart, D.M., Carvalheiro, R., Neves, H.E., Sonstegard, T., Van Tassell, C.P., Garcia, J., Liu, G. 2016. Genome-wide CNV analysis reveals variants associated with growth traits in Bos indicus. Biomed Central (BMC) Genomics. 17(1):419.2016.Improving the goat long-read assembly with optical mapping

- (Abstract Only)Bickhart, D.M., Smith, T.P., Rosen, B.D., Koren	, S., Phillippy, A., Hastie, A.R., Sullivan, S.T., Liachko, I., Burton, J.N., Sayre, B.L., Liu, G., Schroeder, S.G., Sonstegard, T.S., Van Tassell, C.P. 2016. Improving the goat long-read assembly with optical mapping. Plant and Animal Genome Conference Proceedings. San Diego, CA, Jan. 9–13.Diversity and population-genetic properties of copy number variations and multicopy genes in cattle

- (Abstract Only)Bickhart, D.M., Xu, L., Hutchison, J.L., Cole, J.B., Null, D.J., Schroeder, S.G., Song, J., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Lewin, H.A., Liu, G. 2016. Diversity and population-genetic properties of copy number variations and multicopy genes in cattle [abstract]. USDA NIFA Animal Genome Program PD Meeting, January 8, 2016, San Diego, California.Comparative ruminant genomics highlights segmental duplication and mobile element insertion diversity

- (Abstract Only)Bickhart, D.M., Rosen, B.D., Schroeder, S.G., Van Tassell, C.P. 2016. Comparative ruminant genomics highlights segmental duplication and mobile element insertion diversity. Plant and Animal Genome Conference Proceedings. San Diego, CA, Jan. 9–13, W109.Progress toward a low budget reference grade genome assembly
                                                        

- (Abstract Only)Rosen, B.D., Bickhart, D.M., Koren, S., Hastie, A.R., Schroeder, S.G., Smith, T.P., Sullivan, S.T., Liachko, I., Burton, J.N., Dunham, M.J., Sendure, J., Sayre, B.L., Huson, H.J., Liu, G., Connor, E.E., Sonstegard, T.S., Phillippy, A., Van Tassell, C.P. 2016. Progress toward a low budget reference grade genome assembly. Plant and Animal Genome Conference Proceedings. San Diego, CA, Jan. 9–13, P0612.Signatures of positive selection in East African Shorthorn Zebu: a genome-wide SNP analysis

- (Peer Reviewed Journal)Bahbahani, H., Clifford, H., Wragg, D., Mbole-Kariuki, M.N., Van Tassell, C.P., Sonstegard, T.S., Woolhouse, M., Hanotte, O. 2015. Signatures of positive selection in East African Shorthorn Zebu: a genome-wide SNP analysis. Scientific Reports. 5:11729, 2015.The relationship between runs of homozygosity and inbreeding in Jersey cattle under selection

- (Peer Reviewed Journal)Kim, E., Sonstegard, T.S., Van Tassell, C.P., Wiggans, G.R., Rothschild, M. 2015. The relationship between runs of homozygosity and inbreeding in Jersey cattle under selection. PLoS One. 10(7):e0129967.Selection signature analysis in Holstein cattle identified genes known to affect reproduction

- (Abstract Only)Ma, L., Sonstegard, T.S., Van Tassell, C.P., Cole, J.B., Wiggans, G.R., Crooker, B., Ponce De Leon, F., Yang, D. 2015. Selection signature analysis in Holstein cattle identified genes known to affect reproduction. Journal of Dairy Science. 98(Suppl. 2)/Journal of Animal Science 93(Suppl. 3):350(abstr. T102).Effect of increasing the number of single-nucleotide polymorphisms from 60,000 to 85,000 in genomic evaluation of Holsteins

- (Abstract Only)Wiggans, G.R., Cooper, T.A., Van Raden, P.M., Pomp, D., Van Tassell, C.P., Bickhart, D.M., Sonstegard, T.S. 2015. Effect of increasing the number of single-nucleotide polymorphisms from 60,000 to 85,000 in genomic evaluation of Holsteins. Journal of Dairy Science. 98(Suppl. 2)/Journal of Animal Science 93(Suppl. 3):578(abstr. 537).The Second Report on the State of the World's Animal Genetic Resources for Food and Agriculture, Part 4, The State of the Art: Box 4A4: A digital enumeration method for collecting phenotypic data for genome association

- (Government Publication)Woodward Greene, M.J., Kinser, J.K., Huson, H.J., Sonstegard, T.S., Soelkner, J., Vaisman, I.I., Van Tassell, C.P. 2015. The Second Report on the State of the World's Animal Genetic Resources for Food and Agriculture, Part 4, The State of the Art: Box 4A4: A digital enumeration method for collecting phenotypic data for genome association. Food and Agriculture Organization of the United Nations. Available: http://www.fao.org/publications/sowangr/en/, page 424, http://fao.org/3/ai4787e.pdf#page=465.Levels of taurine introgression in the current Brazilian Nelore and Gir indicine cattle populations

- (Peer Reviewed Journal)Perez O'Brien, A.M., Holler, D., Boison, S.A., Milanesi, M., Utsunomiya, Y.T., Carvalheiro, R., Neves, H.H., Da Silva, M.V., Bomba, L., Van Tassell, C.P., Sonstegard, T.S., Ajmone-Marsan, P., Garcia, F., Solkner, J. 2015. Levels of taurine introgression in the current Brazilian Nelore and Gir indicine cattle populations. Genetics Selection Evolution. 47(1):31.Red Maasai x Dorper resistance to gastrointestestinal parasite infections associated to a panel of SNPs

- (Peer Reviewed Journal)Benavides, M., Sonstegard, T.S., Kemp, S., Mugambi, J., Gibson, J., Baker, R., Van Tassell, C.P. 2015. Red Maasai x Dorper resistance to gastrointestestinal parasite infections associated to a panel of SNPs. PLoS One. 10(4):e0122797.Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC

- (Peer Reviewed Journal)Benavides, M., Sonstegard, T.S., Kemp, S., Mugambi, J.M., Gibson, J., Baker, R., Hanottte, O., Marshall, K., Van Tassell, C.P. 2015. Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC. PLoS One. doi: 10.1371/journal.pone.0122797.eCollection2015.RAPTR-SV: a hybrid method for the detection of structural variants
                                                        

- (Peer Reviewed Journal)Bickhart, D.M., Hutchison, J.L., Xu, L., Schnabel, R.D., Taylor, J.F., Reecy, J.M., Schroeder, S.G., Van Tassell, C.P., Sonstegard, T.S., Liu, G. 2015. RAPTR-SV: a hybrid method for the detection of structural variants. Bioinformatics. 31(13):2084-2090.Effect of reference population size and available ancestor genotypes on imputation of Mexican Holstein genotypes

- (Peer Reviewed Journal)Garcia-Ruiz, A., Ruiz-Lopez, F.J., Wiggans, G.R., Van Tassell, C.P., Montaldo, H.H. 2015. Effect of reference population size and available ancestor genotypes on imputation of Mexican Holstein genotypes. Journal of Dairy Science. 98(5):3478-3484.Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC

- (Peer Reviewed Journal)Kim, E., Sonstegard, T.S., Vinicius Da Silva, M., Gasbarre, L.C., Van Tassell, C.P. 2015. Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC. PLoS One. 10(3):e0119380.The use of PacBio and Hi-C data in denovo assembly of the goat genome

- (Abstract Only)Bickhart, D.M., Koren, S., Phillippy, A.M., Smith, T.P., Burton, J.N., Llachko, I., Sayre, B.L., Huson, H.J., Schroeder, S.G., Van Tassell, C.P., Sonstegard, T.S. 2015. The use of PacBio and Hi-C data in denovo assembly of the goat genome. Plant and Animal Genome Conference Proceedings. San Diego, CA, January 10–14, W144.Assessment of autozygosity in Nellore cows (Bos indicus) through high-density SNP genotypes
                                                        

- (Peer Reviewed Journal)Zavarez, L.B., Utsunomiya, Y.T., Carmo, A.S., Neves, H.H., Carvalheiro, R., Ferencakovic, M., Pérez O’Brien, A.M., Curik, I., Cole, J.B., Van Tassell, C.P., Silva, M.V., Sonstegard, T.S., Sölkner, J., Garcia, J.F. 2015. Assessment of autozygosity in Nellore cows (Bos indicus) through high-density SNP genotypes. Frontiers in Genetics. 6:5.Genome changes due to forty years of artificial selection associated with divergent dairy production and reproduction

- (Abstract Only)Sonstegard, T.S., Ma, L., Kim, E., Van Tassell, C.P., Wiggans, G.R., Crooker, B.A., Cole, J.B., Liu, G., Garbe, J.R., Fahrenkug, S.C., Ponce De Leon, F., Da, Y. 2015. Genome changes due to forty years of artificial selection associated with divergent dairy production and reproduction. Plant and Animal Genome Conference. San Diego, CA, January 10–14, W150.A genetic investigation of isle of Jersey cattle, the foundation of the Jersey breed

- (Abstract Only)Huson, H., Sonstegard, T.S., Godfrey, J., Hambrook, D., Wolfe, C.W., Wiggans, G.R., Blackburn, H.D., Van Tassell, C.P. 2015. A genetic investigation of isle of Jersey cattle, the foundation of the Jersey breed. Plant and Animal Genome Conference. San Diego, CA, January 10–14, P0279(W143).Genomic signatures reveal geographic adaption and human selection in cattle

- (Peer Reviewed Journal)Xu, L., Bickhart, D.M., Cole, J.B., Schroeder, S.G., Song, J., Van Tassell, C.P., Sonstegard, T.S., Liu, G. 2014. Genomic signatures reveal geographic adaption and human selection in cattle. Molecular Biology and Evolution. 32(3):711-25.Genome-wide signatures of selection revealed through massive parallel sequencing of DNA across ten turkey populations

- (Peer Reviewed Journal)Aslam, M.L., Bastiaansen, J.W., Elferink, M., Megens, H., Crooijmans, R., Blomberg, L., Van Tassell, C.P., Sonstegard, T.S., Schroeder, S.G., Groenen, M., Long, J.A. 2014. Genome-wide signatures of selection revealed through massive parallel sequencing of DNA across ten turkey populations. Biomed Central (BMC) Genomics. 15:117.Genotype imputation efficiency in Nelore Cattle

- (Peer Reviewed Journal)Carvalheiro, R., Boison, A., Neves, H.H., Sargolzaei, M., Schenkel, F., Utsunomiya, Y.T., O'Brien, A., Solkner, J., Mcewan, J., Van Tassell, C.P., Sonstegard, T.S., Garcia, F. 2014. Genotype imputation efficiency in Nelore Cattle. Genetics Selection Evolution. 46(1):69.Genome wide CNV analysis reveals additional variants associated with milk production traits in Holsteins

- (Peer Reviewed Journal)Xu, L., Cole, J.B., Bickhart, D.M., Hou, Y., Song, J., Van Raden, P.M., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2014. Genome wide CNV analysis reveals additional variants associated with milk production traits in Holsteins. Biomed Central (BMC) Genomics. 15:683.The 1000 bull genome project

- (Peer Reviewed Journal)Daetwyler, H.D., Capitan, A., Pausch, H., Stothard, P., Van Binsbergen, R., Brandum, R.F., Liao, X., Djari, A., Rodriguez, S., Grohs, C., Jung, S., Esquerre, D., Gollnick, N., Rossignol, M., Klopp, C., Rocha, D., Fritz, S., Eggen, A., Bowman, P., Coote, D., Chamberlin, A., Van Tassell, C.P., Huggsle, I., Goddard, M., Guldbrandsten, B., Lund, M.S., Veerkamp, R., Boichard, D., Fries, R., Hayes, B.J. 2014. The 1000 bull genome project. Nature Genetics. 46(8):858-865.The development of genomics applied to dairy breeding

- (Peer Reviewed Journal)Da Silva, M., Dos Santos, D.J., Boison, S.A., Utsunomiya, A.T., Do Carmo, A.S., Sonstegard, T.S., Cole, J.B., Van Tassell, C.P. 2014. The development of genomics applied to dairy breeding. Livestock Science. 166:66-75.Linkage disequilibrium levels in Bos indicus and Bos taurus cattle using medium and high density SNP chip data and different minor allele frequency distributions

- (Book / Chapter)Perez O'Brien, A.M., Meszaros, G., Utsunomiya, Y.T., Sonstegard, T.S., Fernando Garcia, J., Van Tassell, C.P., Carvalheiro, R., Da Silva, M.V., Solkner, J. 2014. Linkage disequilibrium levels in Bos indicus and Bos taurus cattle using medium and high density SNP chip data and different minor allele frequency distributions. Livestock Science. 166:121-132.The identification of a putative mutation for SLICK hair coat in Senepol cattle

- (Abstract Only)Impact of adding foreign genomic information on Mexican Holstein imputation

- (Proceedings)García-Ruiz, A., Ruiz-Lopez, F.J., Wiggans, G.R., Van Tassell, C.P., Montaldo, H. 2014. Impact of adding foreign genomic information on Mexican Holstein imputation. World Congress of Genetics Applied in Livestock Production. Vancouver, Canada, Aug. 17–22. 3 pp.The hunt for a functional mutation affecting conformation and calving traits on chromosome 18 in Holstein cattle

- (Proceedings)Cole, J.B., Hutchison, J.L., Null, D.J., Van Raden, P.M., Liu, G., Schroeder, S.G., Smith, T.P., Sonstegard, T.S., Van Tassell, C.P., Bickhart, D.M. 2014. The hunt for a functional mutation affecting conformation and calving traits on chromosome 18 in Holstein cattle. World Congress of Genetics Applied in Livestock Production. Vancouver, Canada, Aug. 17–22. 3 pp.Evidence of common signatures of selection in the genomes of West African cattle and the Yoruba human population

- (Abstract Only)Utsunomiya, Y.T., Sonstegard, T.S., Hanotte, O., Van Tassell, C.P., Garcia, J.F. 2014. Evidence of common signatures of selection in the genomes of West African cattle and the Yoruba human population. BARC Poster Day, Poster 66,  pp.78.Genome wide CNV analysis reveals additional variants associated with milk production traits in Holsteins

- (Abstract Only)Xu, L., Cole, J.B., Bickhart, D.M., Hou, Y., Song, J., Van Raden, P.M., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2014. Genome wide CNV analysis reveals additional variants associated with milk production traits in Holsteins. BARC Poster Day. BARC Poster Day.p.67, abstract 54.Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle

- (Peer Reviewed Journal)Huson, H., Eui-Soo, K., Godfrey, R.W., Olson, T.A., Mcclure, M., Chase, C.C., Rizzi, R., Perez O'Brien, A., Van Tassell, C.P., Garcia, J., Sonstegard, T.S. 2014. Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle. Frontiers in Livestock Genomics. 5:101.Population sequencing reveals breed and sub-species specific CNVs in cattle

- (Abstract Only)Bickhart, D.M., Xu, L., Hutchison, J.L., Sonstegard, T.S., Van Tassell, C.P., Schroeder, S.G., Fernando Garcia, J., Taylor, J.F., Schnabel, R.D., Lewin, H.A., Liu, G. 2014. Population sequencing reveals breed and sub-species specific CNVs in cattle. CONFERENCE ON THE BIOLOGY OF GENOMES. Conference on the Biology of Genomes, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY. p199.Bovine exome sequence analysis and targeted SNP genotyping of recessive fertility defects HH2, HH3, and BH1 reveals causative mutation in SMC2 for HH3
                                                        

- (Peer Reviewed Journal)Mc Clure, M., Bickhart, D.M., Null, D.J., Van Raden, P.M., Xu, L., Wiggans, G.R., Liu, G., Schroeder, S.G., Glasscock, J., Armstrong, J., Cole, J.B., Sonstegard, T.S., Van Tassell, C.P. 2014. Bovine exome sequence analysis and targeted SNP genotyping of recessive fertility defects HH2, HH3, and BH1 reveals causative mutation in SMC2 for HH3. PLoS One. 9(3):e92769.Accuracy of genomic predictions in Bos indicus (Nellore) cattle
                                                        

- (Peer Reviewed Journal)Neves, H.H., Carvalheiro, R., Perez O'Brien, A.M., Utsunomiya, Y.T., Do Carmo, A.S., Schenkel, F.S., Solkner, J., Ncewab, J.C., Van Tassell, C.P., Sonstegard, T.S., Cole, J.B., Da Silva, M.V., Queiroz, S.A., Garcia, J.F. 2014. Accuracy of genomic predictions in Bos indicus (Nellore) cattle. Genetic Selection Evolution. 46:17.A genome-wide survey reveals a deletion polymorphism associated with resistance to gastrointestinal nematodes in Angus cattle

- (Peer Reviewed Journal)Xu, L., Hou, Y., Bickhart, D.M., Song, J., Van Tassell, C.P., Sonstegard, T.S., Liu, G. 2014. A genome-wide survey reveals a deletion polymorphism associated with resistance to gastrointestinal nematodes in Angus cattle. Functional and Integrative Genomics. DOI:14(2):333-9.The use of population-scale sequencing to identify CNVs impacting productive traits in different cattle breeds

- (Abstract Only)Bickhart, D.M., Xu, L., Hutchison, J.L., Sonstegard, T.S., Van Tassell, C.P., Schroeder, S.G., Garcia, J.F., Taylor, J.F., Schnabel, R.D., Lewin, H., Liu, G. 2014. The use of population-scale sequencing to identify CNVs impacting productive traits in different cattle breeds. Plant and Animal Genome Conference Proceedings. Plant Animal Genome XXII, San Diego, CA, Jan. 11–15, P078.Candidate causative mutation on BTA18 associated with calving and conformation traits in Holstein bulls

- (Abstract Only)Cole, J.B., Hutchison, J.L., Null, D.J., Van Raden, P.M., Liu, G., Schroeder, S.G., Sonstegard, T.S., Van Tassell, C.P., Bickhart, D.M. 2014. Candidate causative mutation on BTA18 associated with calving and conformation traits in Holstein bulls. Plant and Animal Genome Conference Proceedings. Plant Animal Genome XXII, San Diego, CA, Jan. 11–15, P1097.Assessing signatures of selection through variation in linkage disequilibrium between taurine and indicine cattle

- (Peer Reviewed Journal)Perez O'Brien, A.M., Utsunomiya, Y.T., Meszaros, G., Bickhart, D.M., Liu, G., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Solkner, J. 2014. Assessing signatures of selection through variation in linkage disequilibrium between taurine and indicine cattle. Genetics Selection Evolution. 46:19.Genome-wide mapping of loci explaining variance in scrotal circumference in Nellore cattle
                                                        

- (Peer Reviewed Journal)Utsunomiya, Y.T., Do Carmo, A.S., Neves, H.H., Carvalheiro, R., Matos, M.C., Zavarez, L.B., Rauschkolb Katsuda I, P., Perez Obrien, A.M., Solkner, J., Porto Neto, L.R., Schenkel, F.S., Mcewan, J., Cole, J.B., Da Silva, M., Van Tassell, C.P., Sonstegard, T.S., Garcia, J. 2014. Genome-wide mapping of loci explaining variance in scrotal circumference in Nellore cattle. PLoS One. 9(2):e88561.Population sequencing reveals breed and sub-species specific CNVs in cattle

- (Abstract Only)Liu, G., Bickhart, D.M., Xu, L., Hutchison, J.L., Sonstegard, T.S., Van Tassell, C.P., Schroeder, S.G., Garcia, J., Taylor, J.F., Schnabel, R.D., Lewin, H.A. 2014. Population sequencing reveals breed and sub-species specific CNVs in cattle. Meeting Abstract. Advances in Genome Biology & Technology Conference Meeting Abstract. p.58.Genome-wide detection of signatures of selection in Korean Hanwoo cattle

- (Peer Reviewed Journal)Porto-Neto, L., Lee, S., Sonstegard, T.S., Van Tassell, C.P., Lee, H., Gondro, C. 2014. Genome-wide detection of signatures of selection in Korean Hanwoo cattle. Animal Genetics. 45(2):180-190.Effect of artificial selection on runs of Homozygosity in U.S. Holstein cattle
                                                        

- (Peer Reviewed Journal)Kim, E., Cole, J.B., Huson, H.J., Wiggans, G.R., Van Tassell, C.P., Crooker, B.A., Liu, G., Da, Y., Sonstegard, T.S. 2013. Effect of artificial selection on runs of Homozygosity in U.S. Holstein cattle. PLoS One. DOI: 10.1371/journal.pone.0080813.A genome-wide survey reveals a deletion polymorphism associated with resistance to gastrointestinal nematodes in Angus cattle

- (Abstract Only)Liu, G., Xu, L., Hou, Y., Bickhart, D.M., Song, J., Van Tassell, C.P., Sonstegard, T.S. 2013. A genome-wide survey reveals a deletion polymorphism associated with resistance to gastrointestinal nematodes in Angus cattle. BA-UMD Symposium. The University of Maryland/Beltsville ARS 3rd Annual Symposium.Accuracy of genomic predictions in Nellore beef cattle

- (Proceedings)Carvalheiro, R., Mcewan, J.C., Neves, H., Utsunomiya, Y.T., Perez O'Brien, A.M., Boison, A., Solkner, J., Schenkel, F., Van Tassell, C.P., Sonstegard, T.S., Garcia, F. 2013. Accuracy of genomic predictions in Nellore beef cattle. Genetics Selection Evolution. 20:171-174.Imputation of microsatellite alleles from dense SNP genotypes for parentage verification across multiple Bos taurus and Bos indicus breeds

- (Peer Reviewed Journal)McClure, M.C., Sonstegard, T.S., Wiggans, G.R., Van Eenennaam, A., Weber, K., Penedo, M., Berry, D.P., Flynn, J., Garcia, J., Santana Do Carmo, A., Regitano, L., Albuquerque, M., Silva, M.V., Machado, M.A., Coffey, M., Moore, K., Boscher, M., Genestout, L., Mazza, R., Taylor, J.F., Schnabel, R., Simpson, B., Marques, E., Mc Ewan, J., Cromie, A., Lehmann Coutinho, L., Kuehn, L.A., Keele, J.W., Piper, E., Cook, J., Williams, R., Hap Map Consortium, B., Van Tassell, C.P. 2013. Imputation of microsatellite alleles from dense SNP genotypes for parentage verification across multiple Bos taurus and Bos indicus breeds. Frontiers in Genetics. 4:176. DOI.10.3389/fgene.2013.00176.Goat breeding in the tropics: development and application of the genomic tools in a USAID "Feed the Future" program

- (Proceedings)Sayre, B.L., Sonstegard, T.S., Silverstein, J., Huson, H.J., Woodward-Greene, J., Rothschild, M., Nene, V., Denis Mujibi, F., Masiga, C., Fernando Garcia, J., Solkner, J., Van Tassell, C.P. 2013. Goat breeding in the tropics: development and application of the genomic tools in a USAID "Feed the Future" program. Meeting Proceedings. 1983-4357.Genome-wide association study for birth weight Brazilian Nellore cattle (Bos primigenuis indicus) points to previously described orthologous genes affecting human and bovine height
                                                        

- (Peer Reviewed Journal)Utsunomiya, Y.T., Carmo, A.S., Carvalheiro, R., Neves, H.H., Matos, M.C., Zavarez, L.B., O'Brien, A.M., Solkner, J., Mcewan, J., Cole, J.B., Van Tassell, C.P., Schenkel, F.S., Silva, M.V., Porto Neto, L., Sonstegard, T.S., Garcia, J.F. 2013. Genome-wide association study for birth weight Brazilian Nellore cattle (Bos primigenuis indicus) points to previously described orthologous genes affecting human and bovine height. BioMed Central (BMC) Genetics. 13:14-52.Detecting Loci under recent positive selection in dairy and beef cattle by combining different genome-wide scan methods

- (Peer Reviewed Journal)Utsunomiya, Y.T., O'Brien, A.P., Sonstegard, T.S., Van Tassell, C.P., Santana Do Carmo, A.D., Meszaros, G., Solkner, J., Garcia, J.F. 2013. Detecting Loci under recent positive selection in dairy and beef cattle by combining different genome-wide scan methods. PLoS One. 8(5):e64280.Use of residual feed intake in Holsteins during early lactation shows potential to improve feed efficiency through genetic selection

- (Peer Reviewed Journal)Connor, E.E., Hutchison, J.L., Norman, H.D., Olson, K.M., Van Tassell, C.P., Leith, J.M., Baldwin, R.L. 2013. Use of residual feed intake in Holsteins during early lactation shows potential to improve feed efficiency through genetic selection. Journal of Animal Science. 91:3978-3988.African goat improvement project: a Feed the Future initiative harnessing genetic diversity for conservation, disease resistance, and improved productivity

- (Abstract Only)ADAPTmap: International coordinated data resource for improving goat production effiency

- (Other)Analysis of population structure and genetic history of cattle breeds based on high-density SNP data

- (Abstract Only)Xu, L., Huson, H.J., Hou, Y., Bickhart, D.M., Song, J., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2013. Analysis of population structure and genetic history of cattle breeds based on high-density SNP data. BARC Poster Day. p.55 Abstract 48.High overlap of CNVs and selection signatures revealed by varLD analyses of taurine and zebu cattle

- (Abstract Only)Perez O'Brien, A., Meszaros, G., Utsunomiya, Y., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Solkner, J. 2013. High overlap of CNVs and selection signatures revealed by varLD analyses of taurine and zebu cattle. Book of Abstracts of the 64th Annual Meeting of the European Association for Animal Production, Nantes, France 2013 pp.604.Identification of single nucleotide polymorphisms (SNPs)associated to Red Maasai x Dorper resistance to gastrointestinal parasite infections

- (Abstract Only)Benavides, M., Sonstegard, T.S., Kemp, S., Mugambi, J., Gibson, J., Baker, R., Van Tassell, C.P. 2013. Identification of single nucleotide polymorphisms (SNPs)associated to Red Maasai x Dorper resistance to gastrointestinal parasite infections. BARC Poster Day. BARC {oster Day 2013   Abstract #3.Big data computing: Building a vision for ARS information management

- (Government Publication)James, R.R., Lawrence, C.J., Papiernik, S.K., Van Tassell, C.P., Ahuja, L.R., Baxter, I.R., Cannon, S.B., Lunney, J.K., Rexroad Iii, C.E., Sadler, J., Stanton, T.B., Stephensen, C.B. 2013. Big data computing: Building a vision for ARS information management. USDA. Agricultural Research Service Publication (White Paper).Genomic divergence of indicine and taurine cattle identified through high-density SNP genotyping

- (Abstract Only)Porto-Neto, L.R., Sonstegard, T.S., Mcclure, M.C., Bickhart, D.M., Gondro, C., Da Silva, M., Utsunomiya, Y.T., Garcia, J.F., Van Tassell, C.P. 2013. Genomic divergence of indicine and taurine cattle identified through high-density SNP genotyping. J. Anim. Sci. Vol. 91, E-Suppl. 2/J. Dairy Sci. Vol. 96, E-Suppl. 1, paper 314, pp. 314.Fine mapping for Weaver Syndrome in the Brown Swiss breed with the identification of possible casual mutations across NRCAM, PNPLA8, and CTTNBP2 and Developement of a diagnostic SNP haplotype

- (Peer Reviewed Journal)Mcclure, M.C., Kim, E., Bickhart, D.M., Null, D.J., Cooper, T.A., Cole, J.B., Wiggans, G.R., Marsan, P.A., Colli, L., Santus, E., Liu, G., Schroeder, S.G., Matukumalli, L., Van Tassell, C.P., Sonstegard, T.S. 2013. Fine mapping for Weaver Syndrome in the Brown Swiss breed with the identification of possible casual mutations across NRCAM, PNPLA8, and CTTNBP2 and Developement of a diagnostic SNP haplotype. PLoS One. 8(3):e59251.African goat improvement project: A feed the future initiative harnessing genetic diversity for conservation, disease resistance, and improved productivity

- (Other)Microsatellite Imputation for parental verification from SNP across multiple Bos taurus and indicus breeds

- (Abstract Only)Mcclure, M.C., Sonstegard, T.S., Van Tassell, C.P., Wiggans, G.R., Van Eenennaam, A., Weber, K., Penedo, C., Berry, D., Flynn, J., Fernando Garcia, J., Santa, A., Regitano, L., Albuquerque, M., Silva, M., Coffey, M., Moore, K., Boscher, M., Genestout, L., Mazza, R., Taylor, J., Schnabel, R., Machado, M.A., Simpson, B., Mcewan, J., Cromie, A., Countinho, L.L., Kuehn, L.A., Keele, J.W., Piper, E., Cook, J., Marques, E. 2013. Microsatellite Imputation for parental verification from SNP across multiple Bos taurus and indicus breeds. Plant Animal Genome XXI, paper PO132, pp. 206.Admixture and linkage disequilibrium analysis of meat goat breeds

- (Abstract Only)Sayre, B., Soelkner, J., Van Tassell, C.P., Sonstegard, T.S. 2013. Admixture and linkage disequilibrium analysis of meat goat breeds. Plant Animal Genome XXI, paper PO711, pp. 251.Population analysis of 60 worldwide cattle breeds using high-density (700k)SNP genotyping

- (Abstract Only)Huson, H.J., Sonstegard, T.S., Soelkner, J., Mustafa, H., Mukasa, C., Nash, O., Bradely, D., Van Tassell, C.P. 2013. Population analysis of 60 worldwide cattle breeds using high-density (700k)SNP genotyping. Plant Animal Genome XXI, paper PO524, pp. 237.Multi-platform next generation sequencing of a high quality genome assembly for the goat

- (Abstract Only)Sonstegard, T.S., Smith, T.P., Schroeder, S.G., Huson, H.J., Zimin, A., Woodward Greene, M.J., Mujibi, D.F., Mcclure, M.C., Silverstein, J., Van Tassell, C.P., Sayre, B.L. 2013. Multi-platform next generation sequencing of a high quality genome assembly for the goat. Plant Animal Genome XXI, paper W417,  pp. 171.African goat improvement project: A feed the future initiative harnessing geneticdiversity for conservation, disease resistance, and improved productivity

- (Abstract Only)Huson, H.J., Sonstegard, T.S., Silverstein, J., Sayre, B., Woodward Greene, M.J., Rothschild, M., Nene, V., Mujibi, D., Kemp, S., Masiga, C., Mubiru, S., Garcia, F., Soelkner, J., Van Tassell, C.P. 2013. African goat improvement project: A feed the future initiative harnessing geneticdiversity for conservation, disease resistance, and improved productivity. Plant ANimal Genome XXI, paper W416, pp. 171.Bos taurus indicus (Nelore) hybrid assembly improvement using PacBio reads

- (Abstract Only)Schroeder, S.G., Zimin, A., Bickhart, D.M., Sonstegard, T.S., Van Tassell, C.P., Garcia, F.J. 2013. Bos taurus indicus (Nelore) hybrid assembly improvement using PacBio reads. Poster  P0523, pp.237.Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping

- (Peer Reviewed Journal)Porto-Neto, L.R., Sonstegard, T.S., Liu, G., Bickhart, D.M., Gondro, C., Silva, M., Machado, M., Utsunomiya, Y.T., Garcia, J.F., Van Tassell, C.P. 2013. Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping. Biomed Central (BMC) Genomics. DOI:10.1186/1471-2164-14-876.Identification of a nonsense mutation in CWC15 associated with decreased reproductive efficiency in Jersey cattle

- (Peer Reviewed Journal)Sonstegard, T.S., Cole, J.B., Van Raden, P.M., Van Tassell, C.P., Null, D.J., Schroeder, S.G., Bickhart, D.M., Mcclure, M.C. 2013. Identification of a nonsense mutation in CWC15 associated with decreased reproductive efficiency in Jersey cattle. PLoS One. 8(1):e54872.Genomics and parentage identification/verification

- (Other)Bos taurus indicus (Nelore) hybrid assembly improvement using PacBio reads

- (Abstract Only)Technical note: Characteristics and use of the Illumina BovineLD and GeneSeek Genomic Profiler low-density bead chips for genomic evaluation

- (Peer Reviewed Journal)Wiggans, G.R., Cooper, T.A., Van Tassell, C.P., Sonstegard, T.S., Simpson, E.B. 2013. Technical note: Characteristics and use of the Illumina BovineLD and GeneSeek Genomic Profiler low-density bead chips for genomic evaluation. Journal of Dairy Science. 96(2):1258-1263.Effect of sample stratification on dairy GWAS results

- (Peer Reviewed Journal)Ma, L., Wiggans, G.R., Wang, S., Sonstegard, T.S., Yang, J., Crooker, B.A., Cole, J.B., Van Tassell, C.P., Da, Y. 2012. Effect of sample stratification on dairy GWAS results. Biomed Central (BMC) Genomics. 13:536.Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array

- (Peer Reviewed Journal)Hou, Y., Bickhart, D.M., Hvinden, M.L., Li, C., Song, J., Boichard, D.A., Fritz, S., Eggen, A., Denise, S., Wiggans, G.R., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2012. Fine mapping of copy number variations on two cattle genome assemblies using high density SNP array. Biomed Central (BMC) Genomics. 13:376.Imputation of microsatellite allele from dense SNP genotypes for parentage verification

- (Peer Reviewed Journal)Mcclure, M.C., Sonstegard, T.S., Van Tassell, C.P., Wiggans, G.R. 2012. Imputation of Microsatellite Allele from Dense SNP Genotypes for Parentage Verification. Frontiers in Livestock Genomics. 3:140.Quantitative trait loci for resistance to Haemonchus contortus under artificial challenge in Red Maasai and Dorper sheep of East Africa

- (Peer Reviewed Journal)Marshall, K., Nagda, S., Gibson, J.P., Sonstegard, T.S., Hanotte, O., Silva, M.V., Baker, L., Van Tassell, C.P. 2013. Quantitative trait loci for resistance to Haemonchus contortus under artificial challenge in Red Maasai and Dorper sheep of East Africa. Animal Genetics. 44(3):285-295.Fine mapping and discovery of recessive mutations that cause abortions in dairy cattle

- (Abstract Only)Van Raden, P.M., Null, D.J., Sonstegard, T.S., Adams, H.A., Van Tassell, C.P., Olson, K.M. 2012. Fine mapping and discovery of recessive mutations that cause abortions in dairy cattle. Journal of Dairy Science. 95(Suppl. 2):ii–iii(abstr. LB6). 2012.Signature of forty years of artificial selection in U.S. Holstein cattle identified by long-range frequency analyses

- (Proceedings)Sonstegard, T.S., Wang, S., Van Tassell, C.P., Ma, L., Wiggans, G.R., Crooker, B., Cole, J.B., Mariani, B.D., Kim, E., Garbe, J.R., Fahrenkrug, S., Liu, G., Da, Y. 2012. Signature of forty years of artificial selection in U.S. Holstein cattle identified by long-range frequency analyses. International Conference on Quantitative Genetics: Understanding Variation in Complex Traits, Edinburgh, Scotland, June 17–22, Programme & Book of Abstracts, p. 213, abstr. P-314.Copy number variation detection in cattle reveals potential breed specific differences

- (Abstract Only)Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L.K., Song, J., Schnabel, R.D., Ventura, M., Taylor, J., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Eichler, E.E., Liu, G. 2012. Copy number variation detection in cattle reveals potential breed specific differences. BARC Poster Day. p. 13Identification of single nucleotide polymorphisms (SNPs) associated to Red Maasai x Dorper resistance to gastrointestinal parasite infections

- (Abstract Only)Characteristics and use of the Illumina BovineLD BeadChip

- (Abstract Only)Wiggans, G.R., Van Raden, P.M., Cooper, T.A., Van Tassell, C.P., Sonstegard, T.S., Simpson, B. 2012. Characteristics and use of the Illumina BovineLD BeadChip. Journal of Dairy Science. 95(Suppl. 2):447(abstr. 450). 2012.Analysis of copy number variations among cattle breeds

- (Abstract Only)Liu, G., Hou, Y., Zhu, B., Cardone, M.F., Jiang, L., Cellamare, A., Mitra, A., Alexander, L.J., Coutinho, L.L., Gasbarre, L.C., Li, R.W., Matukumalli, L.K., Nonneman, D.J., Regitano, L.C., Smith, T.P., Song, J., Sonstegard, T.S., Van Tassell, C.P., Ventura, M., Eichler, E.E., Mcdaneld, T.G., Keele, J.W. 2012. Analysis of copy number variations among cattle breeds. [abstract] CONFERENCE ON THE BIOLOGY OF GENOMES. P. 182.Design of a bovine low-density SNP array optimized for imputation

- (Peer Reviewed Journal)Boichard, D., Chung, H., Dassonneville, R., David, X., Eggen, A., Fritz, S., Gietzen, K.J., Hayes, B.J., Lawley, C.T., Sonstegard, T.S., Van Tassell, C.P., Van Raden, P.M., Viaud, K., Wiggans, G.R. 2012. Design of a bovine low-density SNP array optimized for imputation. PLoS One. 7(3):e34130.Copy number variation of individual cattle genomes using next-generation sequencing

- (Peer Reviewed Journal)Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L.K., Song, J., Schnabel, R.D., Ventura, M., Taylor, J., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Eichler, E.E., Liu, G. 2012. Copy number variation of individual cattle genomes using next-generation sequencing. Genome Research. 22(4):778-90.Box-Cox Transformation and Random Regression Models for Fecal Egg Count Data

- (Peer Reviewed Journal)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2012. Box-Cox Transformation and Random Regression Models for Fecal Egg Count Data. Frontiers in Genetics. 2:112.Copy number variation of individual cattle genomes using next-generation sequencing

- (Abstract Only)Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L.K., Song, J., Schnabel, R.D., Ventura, M., Taylor, J.F., Garcia, J., Van Tassell, C.P., Sonstegard, T.S., Eichler, E.E., Liu, G. 2012. Copy number variation of individual cattle genomes using next-generation sequencing. Plant and Animal Genome Conference. p. 549.Applications of Genomics to Genetic Improvement of Dairy Cattle

- (Proceedings)Van Tassell, C.P., Wiggins, G.R., Vanraden, P.M., Cooper, T.A., Sonstegard, T.S. 2011. Applications of Genomics to Genetic Improvement of Dairy Cattle. Cornell Nutrition Conference for Feed Manufacturers. p. 57-68.Copy number variations related to reproduction traits in Holstein cattle

- (Abstract Only)Hou, Y., Bickhart, D.M., Fang, X., Song, J., Van Tassell, C.P., Sonstegard, T.S., Seroussi, E., Liu, G. 2011. Copy number variations related to reproduction traits in Holstein cattle. Meeting Abstract. No. 7.Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle

- (Abstract Only)Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L.K., Li, C., Song, J., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus cattle [abstract]. Paper No. 6.Individualized cattle copy number and segmental duplication maps using next generation sequencing

- (Abstract Only)Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M., Matukumalli, L., Song, J., Schnabel, R.D., Ventura, M., Taylor, J.F., Garcia, J., Eichler, E.E., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2011. Individualized cattle copy number and segmental duplication maps using next generation sequencing. Meeting Abstract. No. 8.Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus Cattle

- (Peer Reviewed Journal)Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L.K., Li, C., Song, J., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic regions showing copy number variations associate with resistance or susceptibility to gastrointestinal nematodes in Angus Cattle. Functional and Integrative Genomics. 12(1):81-92.Genome-wide association analysis of thirty one production, health,
reproduction and body conformation traits in contemporary U.S. Holstein cows

- (Peer Reviewed Journal)Cole, J.B., Wiggans, G.R., Ma, L., Sonstegard, T.S., Lawlor, T.J., Crooker, B.A., Van Tassell, C.P., Yang, J., Wang, S., Matukumalli, L.K., Da, Y. 2011. Genome-wide association analysis of thirty one production, health, reproduction and body conformation traits in contemporary U.S. Holstein cows. Biomed Central (BMC) Genomics. Online, 12:408.A high-resolution cattle CNV map by population-scale genome sequencing

- (Abstract Only)Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M.F., Matukumalli, L.K., Schnabel, R.D., Ventura, M., Taylor, J.F., Eichler, E.E., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2011. A high-resolution cattle CNV map by population-scale genome sequencing [abstract]. Gordon Research Conference. No. 48.Cattle from the Isle of Jersey:  A perfect storm for change

- (Government Publication)Sonstegard, T.S., Van Tassell, C.P., Wolfe, C. 2011. Cattle from the Isle of Jersey:  A perfect storm for change. GlobalDiv Newsletter. vol. 19 p. 15-18.Bovine Genetic Diversity Revealed By mtDNA Sequence Variation

- (Abstract Only)Sonstegard, T.S., Van Tassell, C.P., Mcclure, M.C., Chung, H. 2011. Bovine Genetic Diversity Revealed By mtDNA Sequence Variation [abstrac].  BARC Poster Day. No. 15.Discovery of Genetic Variation that Enhances Improvement of Dairy Production and Health in Cattle and Buffalos

- (Abstract Only)A high-resolution cattle CNV map by population-scale genome sequencing

- (Abstract Only)Bickhart, D.M., Hou, Y., Liu, G., Schroeder, S.G., Can, A., Maria, C., Matukumalli, L., Song, J., Schnabel, R., Ventura, M., Taylor, J., Eichler, E., Sonstegard, T.S., Van Tassell, C.P., Illumina Bovine Hd, C. 2011. A high-resolution cattle CNV map by population-scale genome sequencing. BARC Poster Day [abstract].  No. 5.Genomic and functional characteristics of copy number variations in Angus cattle selected for resistance or susceptibility to gastrointestinal nematodes

- (Abstract Only)Hou, Y., Liu, G., Bickhart, D.M., Matukumalli, L., Song, J., Gasbarre, L., Van Tassell, C.P., Sonstegard, T.S. 2011. Genomic and functional characteristics of copy number variations in Angus cattle selected for resistance or susceptibility to gastrointestinal nematodes [abstract].  BARC Poster Day. No. 17.Properties of different density genotypes used in dairy cattle evaluation

- (Abstract Only)Van Raden, P.M., Tooker, M.E., Olson, K.M., Cooper, T.A., Wiggans, G.R., Van Tassell, C.P. 2011. Properties of different density genotypes used in dairy cattle evaluation. Journal of Animal Science 89(E-Suppl. 1)/Journal of Dairy Science 94(E-Suppl. 1):420(abstr. 330).Genomic characteristics of cattle copy number variations

- (Peer Reviewed Journal)Hou, Y., Liu, G., Bickhart, D.M., Cardone, M.F., Wang, K., Kim, E., Matukumalli, L., Ventura, M., Song, J., Van Raden, P.M., Sonstegard, T.S., Van Tassell, C.P. 2011. Genomic characteristics of cattle copy number variations. Biomed Central (BMC) Genomics. 12:127.A high-resolution cattle CNV map by population-scale genome sequencing

- (Abstract Only)Bickhart, D.M., Hou, Y., Schroeder, S.G., Alkan, C., Cardone, M.F., Matukumalli, L.K., Schnabel, R.D., Ventura, M., Taylor, J.F., Eichler, E.E., Sonstegard, T.S., Van Tassell, C.P., Liu, G. 2011. A high-resolution cattle CNV map by population-scale genome sequencing. CONFERENCE ON THE BIOLOGY OF GENOMES [abstract]. p. 32.Identification of quantitative trait loci affecting resistance to gastro-intestinal parasites in a double backcross population of Red Maasai and Dorper sheep

- (Peer Reviewed Journal)Silva, M.V., Sonstegard, T.S., Hanotte, O., Mugambi, J., Garcia, J.F., Nagda, S., Gibson, J., Iraqi, F., Mcclintock, A.E., Kemp, S., Boettcher, P., Malek, M., Van Tassell, C.P., Baker, R.L. 2012. Identification of quantitative trait loci affecting resistance to gastro-intestinal parasites in a double backcross population of Red Maasai and Dorper sheep. Animal Genetics. 43(1):63-71.Genomic and evolutionary characteristics of cattle copy number variations

- (Abstract Only)Hou, Y., Liu, G., Cardone, M.F., Wang, K., Kim, E., Matukumalli, L.K., Ventura, M., Van Raden, P.M., Sonstegard, T.S., Van Tassell, C.P. 2011. Genomic and evolutionary characteristics of cattle copy number variations [abstract].  Plant and Animal Genome Conference Proceedings. p. 537.An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation

- (Peer Reviewed Journal)Harhay, G.P., Smith, T.P.L., Alexander, L.J., Haudenschild, C.D., Keele, J.W., Matukumalli, L.K., Schroeder, S.G., Van Tassell, C.P., Gresham, C.R., Bridges, S.M., Burgess, S.C., Sonstegard, T.S. 2010. An atlas of bovine gene expression reveals novel distinctive tissue characteristics and evidence for improving genome annotation. Genome Biology [online serial]. 11:R102.Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo) genome assembly and analysis

- (Peer Reviewed Journal)Dalloul, R.A., Long, J.A., Zimin, A.V., Reed, K.M., Blomberg, L., Van Tassell, C.P., Schroeder, S.G., Sonstegard, T.S., Aslam, L., Beal, K., Biedler, J., Burt, D.W., Crasta, O., Crooijmans, R.P., Cooper, K., Coulombe, R.A., De, S., Delany, M.E., Dodgson, J.B., Dong, J.J., Evans, C., Flicek, P., Florea, L., Folkerts, O., Groenen, M.A., Harkins, T.T., Herrero, J., Hoffmann, S., Megens, H., Jiang, A., Jong, P., Kaiser, P., Kim, H., Kim, K., Kim, S., Langenberger, D., Lee, M., Lee, T., Mane, S., Marcais, G., Marz, M., Mcelroy, A.P., Modise, T., Nefedov, M., Notredame, C., Paton, I.R., Payne, W.S., Pertea, G., Prickett, D., Puiu, D., Qioa, D., Raineri, E., Salzberg, S.L., Schatz, M.C., Scheuring, C., Schmidt, C.J., Schroeder, S.G., Smith, E.J., Smith, J., Sonstegard, T.S., Stadler, P.F., Tafer, H., Tu, Z., Van Tassell, C.P., Vilella, A.J., Williams, K., Yorke, J.A., Zhang, L., Zhang, H., Zhang, Z., Zhang, Y. 2010. Multi-platform next-generation sequencing of the domestic turkey (Meleagris gallopavo) genome assembly and analysis. PLoS Biology. 8(9):e1000475.Genomic Selection and its Effects on Dairy Cattle Breeding Programs

- (Abstract Only)Weigel, K.A., De Los Campos, G., Vazquez, A.I., Van Tassell, C.P., Rosa, G., Gianola, D., O'Connell, J.R., Van Raden, P.M., Wiggans, G.R. 2010. Genomic Selection and its Effects on Dairy Cattle Breeding Programs. World Congress of Genetics Applied in Livestock Production. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany, Aug. 1–6, abstr. p. 19.Genomic Selection and its Effects on Dairy Cattle Breeding Programs

- (Proceedings)Weigel, K.A., De Los Campos, G., Vazquez, A.I., Van Tassell, C.P., Rosa, G., Gianola, D., O'Connell, J.R., Van Raden, P.M., Wiggans, G.R. 2010. Genomic Selection and its Effects on Dairy Cattle Breeding Programs. World Congress of Genetics Applied in Livestock Production. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany, Aug. 1–6, 8 pp.High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows

- (Abstract Only)Cole, J.B., Wiggans, G.R., Ma, L., Sonstegard, T.S., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L.K., Da, Y. 2010. High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows. World Congress of Genetics Applied in Livestock Production.  Proc. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany, Aug. 1–6., abstr. p. 22.High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows

- (Proceedings)Cole, J.B., Wiggans, G.R., Ma, L., Sonstegard, T.S., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L.K., Da, Y. 2010. High Resolution QTL Maps Of 31 Traits in Contemporary U.S. Holstein Cows. World Congress of Genetics Applied in Livestock Production. Proc. 9th World Congr. Genet. Appl. Livest. Prod., Leipzig, Germany, Aug. 1–6., 4 pp.Sequence analysis for a de novo genome assembly of Bos indicus (Nelore) cattle

- (Abstract Only)Sonstegard, T.S., Schroeder, S.G., Smith, T.P., Zimin, A., Matukumalli, L.K., Ajmone-Marsan, P., Wiedmann, R.T., Negrini, R., Yorke, J., Van Tassell, C.P., Garcia, J.F. 2010. Sequence analysis for a de novo genome assembly of Bos indicus (Nelore) cattle. Animal Genetics International Conference Proceedings.Genome-Wide Association Analysis to Identify Loci for Milk Yield in Gyr Breed

- (Abstract Only)Silva, M., Verneque, R.S., Machado, M.A., Peixota, M.G., Guimaraes, M.M., Arbex, W.A., Guedes, E., Van Tassell, C.P., Sonstegard, T.S. 2010. Genome-Wide Association Analysis to Identify Loci for Milk Yield in Gyr Breed. Animal Genetics International Conference Proceedings.Forty Years Of Artificial Selection In U.S. Holstein Cattle Had Genome-wide Signatures

- (Proceedings)Sonstegard, T.S., Ma, L., Van Tassell, C.P., Kim, E., Cole, J.B., Wiggans, G.R., Crooker, B.A., Mariani, B.D., Gerber, J.R., Fahrenkrug, S.C., Liu, G., Da, Y. 2010. Forty Years Of Artificial Selection In U.S. Holstein Cattle Had Genome-wide Signatures. World Congress of Genetics Applied in Livestock Production.WHOLE GENOME ASSOCIATION ANALYSIS IDENTIFIES SUSCEPTIBILITY ALLELES FOR PARASITIC INFECTION IN BOS TAURUS CATTLE

- (Abstract Only)Sonstegard, T.S., Silva, M.V., Kim, E., Matukumalli, L.K., Schroeder, S.G., Gasbarre, L.C., Van Tassell, C.P. 2010. Whole genome association analysis identifies susceptibility alleles for parasitic infection in Bos taurus cattle. International Symposium on Animal Genomics for Animal Health.Analysis of copy number variations reveals differences among cattle breeds

- (Peer Reviewed Journal)Liu, G., Hou, Y., Zhu, B., Cardone, M.F., Jiang, L., Cellamare, A., Mitra, A., Alexander, L.J., Coutinho, L.L., Gasbarre, L.C., Heaton, M.P., Li, R.W., Matukumalli, L.K., Nonneman, D.J., De A Regitano, L.C., Smith, T.P., Song, J., Sonstegard, T.S., Van Tassell, C.P., Eichler, E.E., Mcdaneld, T.G., Keele, J.W. 2010. Analysis of copy number variations among cattle breeds. Genome Research. 20:693-703.Prediction of Unobserved Single Nucleotide Polymorphism Genotypes of Jersey Cattle Using Reference Panels and Population-Based Imputation Algorithms

- (Peer Reviewed Journal)Weigel, K.A., Van Tassell, C.P., O'Connell, J.R., Van Raden, P.M., Wiggans, G.R. 2010. Prediction of unobserved single nucleotide polymorphism genotypes of Jersey cattle using reference panels and population-based imputation algorithms. Journal of Dairy Science.  93(5):2229-2238.Estimation of Genomic Inbreeding Coefficients Using BovineSNP50 genotypes from U.S. Jersey Cattle

- (Abstract Only)Kim, E., Van Tassell, C.P., Sonstegard, T.S. 2010. Estimation of Genomic Inbreeding Coefficients Using BovineSNP50 genotypes from U.S. Jersey Cattle. Plant and Animal Genome Conference Proceedings.Information Theoretical Analysis of a Bovine Gene Atlas Reveals Chromosomal Regions with Tissue Specific Gene Expression.

- (Abstract Only)Sonstegard, T.S., Harhay, G.P., Alexander, L.J., Schroeder, S.G., Keele, J.W., Matukumalli, L., Bridges, S., Burgess, S., Van Tassell, C.P., Smith, T.P. 2010. Information Theoretical Analysis of a Bovine Gene Atlas Reveals Chromosomal Regions with Tissue Specific Gene Expression. Plant and Animal Genome VX Conference Abstracts.High Resolution QTL Map Of Body Conformation Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows

- (Abstract Only)Wiggans, G.R., Ma, L., Sonstegard, T.S., Cole, J.B., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L.K., Da, Y. 2010. High Resolution QTL Map Of Body Conformation Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows. Plant and Animal Genome Conference Proceedings. San Diego, Ca, Jan. 9-13, abstr. P547.High Resolution QTL Map Of Net Merit Component Traits And Calving Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows

- (Abstract Only)Cole, J.B., Sonstegard, T.S., Ma, L., Wiggans, G.R., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L., Da, Y. 2010. High Resolution QTL Map Of Net Merit Component Traits And Calving Traits From Genome-Wide Association Analysis In Contemporary U.S. Holstein Cows. Plant and Animal Genome Conference Proceedings. San Diego, Ca, Jan. 9-13, abstr. P565.X Chromosome SNPs Were Heavily Involved In Epistasis Effects Of Net Merit Component Traits In Contemporary U.S. Holstein Cows

- (Abstract Only)Ma, L., Sonstegard, T.S., Cole, J.B., Wiggans, G.R., Crooker, B.A., Van Tassell, C.P., Yang, J., Matukumalli, L., Da, Y. 2010. X Chromosome SNPs Were Heavily Involved In Epistasis Effects Of Net Merit Component Traits In Contemporary U.S. Holstein Cows  . Plant and Animal Genome Conference Proceedings. San Diego, Ca, Jan. 9-13, abstr. P542.CHARACTERIZATION OF DGAT1 ALLELIC EFFECTS IN A SAMPLE OF NORTH AMERICAN HOLSTEIN CATTLE.

- (Peer Reviewed Journal)Barbosa Da Silva, M.V., Sonstegard, T.S., Thallman, R.M., Connor, E.E., Schnabel, R.D., Van Tassell, C.P. 2010. CHARACTERIZATION OF DGAT1 ALLELIC EFFECTS IN A SAMPLE OF NORTH AMERICAN HOLSTEIN CATTLE. Animal Biotechnology. 21(2):88-99.Resolving the Evolution of Extant and Extinct Ruminants With High-Throughput Phylogenomics

- (Peer Reviewed Journal)Decker, J.E., Pires, J.C., Conant, G.C., McKay, S.D., Heaton, M.P., Chen, K., Cooper, A., Vilkki, J., Seabury, C.M., Caetano, A.R., Johnson, G.S., Brenneman, R.A., Hanotte, O., Eggert, L.S., Wiener, P., Kim, J.J., Kim, K.S., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., McEwan, J.C., Brauning, R., Coutinho, L.L., Babar, M.E., Wilson, G.A., McClure, M.C., Rolf, M.M., Kim, J., Schnabel, R.D., Taylor, J.F. 2009. Resolving the Evolution of Extant and Extinct Ruminants With High-Throughput Phylogenomics. Proceedings of the National Academy of Sciences. 106(44):18644-18649.Enhanced mitochondrial complex gene function and reduced liver size may mediate improved feed efficiency of beef cattle during compensatory growth

- (Peer Reviewed Journal)Connor, E.E., Kahl, S., Elsasser, T.H., Parker, J., Li, R.W., Van Tassell, C.P., Baldwin, R.L., Barao, S.M. 2009. Enhanced mitochondrial complex gene function and reduced liver size may mediate improved feed efficiency of beef cattle during compensatory growth. Functional and Integrative Genomics. 10(1):39-51.A validated genome wide association study to breed cattle adapted to an environment altered by climate change

- (Peer Reviewed Journal)Hayes, B.J., Bowman, A.J., Chamberlain, A.J., Savin, K., Van Tassell, C.P., Sonstegard, T.S., Goddard, M.E. 2009. A validated genome wide association study to breed cattle adapted to an environment altered by climate change. PLoS One.  Aug 18:4(8)e:6676.Design of a High Density SNP Genotyping Assay in the Pig Using SNPs Identified and Characterized by Next Generation Sequencing Technology

- (Peer Reviewed Journal)Ramos, A.M., Crooijmans, R.P.M.A., Affara, N.A., Amaral, A.J., Archibald, A.L., Beever, J.E., Bendixen, C., Churcher, C., Clark, R., Dehais, P., Hansen, M.S., Hedegaard, J., Hu, Z.L., Kerstens, H.H., Law, A.S., Megens, H.J., Milan, D., Nonneman, D.J., Rohrer, G.A., Rothschild, M.F., Smith, T.P.L., Schnabel, R.D., Van Tassell, C.P., Taylor, J.F., Wiedmann, R.T., Schook, L.B., Groenen, M.A.M. 2009. Design of a High Density SNP Genotyping Assay in the Pig Using SNPs Identified and Characterized by Next Generation Sequencing Technology. PLoS One 4(8):E6524. p. 1-13.GENOME SIGNATURES OF ARTIFICIAL SELECTION IN HOLSTEIN CATTLE

- (Abstract Only)Sonstegard, T.S., Ma, L., Cole, J.B., Van Tassell, C.P., Wiggans, G.R., Crooker, B.A., Garbe, J.R., Fahrenkrug, S.C., Mariani, B.D., Liu, G., Da, Y. 2009. GENOME SIGNATURES OF ARTIFICIAL SELECTION IN HOLSTEIN CATTLE. Cold Spring Harbor Meeting.HIGH-THROUGHPUT PHYLOGENOMICS: FROM ANCIENT DNA TO SIGNATURES OF HUMAN ANIMAL HUSBANDRY

- (Abstract Only)Decker, J.E., Pires, J.C., Conant, G.C., Mckay, S.D., Heaton, M.P., Vilkki, J., Seabury, C.M., Caetano, A.R., Johnson, G.S., Brenneman, R.A., Hanotte, O., Eggert, L.S., Wiener, P., Kim, J., Kim, K.S., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., Chen, K., Cooper, A., Mcewan, J.C., Brauning, R., Coutinho, L.L., Babar, M.E., Wilson, G.A., Mcclure, M.C., Rolf, M.M., Kim, J., Schnabel, R.D., Taylor, J.F. 2009. HIGH-THROUGHPUT PHYLOGENOMICS: FROM ANCIENT DNA TO SIGNATURES OF HUMAN ANIMAL HUSBANDRY. Cold Spring Harbor Meeting.High-resolution haplotype block structure in the cattle genome

- (Peer Reviewed Journal)Villa-Angulo, R., Matukumalli, L.K., Gill, C.A., Choi, J., Van Tassell, C.P., Grefenstette, J.J. 2009. High-resolution haplotype block structure in the cattle genome. Journal of Animal Breeding and Genetics. 24(10):19.Unlocking the bovine genome

- (Peer Reviewed Journal)Tellam, R.L., Lemay, D.G., Van Tassell, C.P., Lewin, H.A., Worley, K.C., Elsik, C.G. 2009. Unlocking the bovine genome. BioMed Central (BMC) Genetics. 24(10):193.A whole-genome assembly of the domestic cow, Bos taurus

- (Peer Reviewed Journal)Zimin, A.V., Delcher, A.L., Florea, L., Kelley, D.R., Schatz, M.C., Puiu, D., Hanrahan, F., Pertea, G., Van Tassell, C.P., Sonstegard, T.S., Marcais, G., Roberts, M., Subramanian, P., Yorke, J.A., Salzberg, S.L. 2009. A whole-genome assembly of the domestic cow, Bos taurus. Genome Biology. 10(4):R42.Análise de Associação por Todo o Genoma para Identificar Locos Relacionados ao Lucro Líquido, à Vida Produtiva e ao Escore de Células Somáticas na raça Jersey1

- (Peer Reviewed Journal)Silva, M., Van Raden, P.M., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Kim, E., Wiggans, G.R. 2009. Análise de Associação por Todo o Genoma para Identificar Locos Relacionados ao Lucro Líquido, à Vida Produtiva e ao Escore de Células Somáticas na raça Jersey1. Brazilian Animal Science Society.WHOLE GENOME-WIDE SNP ASSOCIATION: IDENTIFICATION OF SUSCEPTIBILITY ALLELES FOR PARASITIC INFECTION

- (Abstract Only)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Kim, E., Gasbarre, L.C. 2009. WHOLE GENOME-WIDE SNP ASSOCIATION: IDENTIFICATION OF SUSCEPTIBILITY ALLELES FOR PARASITIC INFECTION. BARC Poster Day.Development and Characterization of a High Density SNP Genotyping Assay for Cattle

- (Peer Reviewed Journal)Matukumalli, L.K., Lawley, C.T., Schnabel, R.D., Taylor, J.F., Allan, M.F., Heaton, M.P., O'Connell, J., Moore, S.S., Smith, T.P., Sonstegard, T.S., Van Tassell, C.P. 2009. Development and Characterization of a High Density SNP Genotyping Assay for Cattle. PLoS One. 4(4):e5350.  Available:  http://dx.doi.org/10.1371/journal.pone.0005350.The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution

- (Peer Reviewed Journal)Elsik, C.G., Gibbs, R., Skow, L., Tellam, R., Weinstock, G., Worley, K., Kappes, S.M., Green, R.D., Alexander, L.J., Bennett, G.L., Carroll, J.A., Chitko Mckown, C.G., Hamernik, D.L., Harhay, G.P., Keele, J.W., Liu, G., Macneil, M.D., Matukumalli, L.K., Rijnkels, M., Roberts, A.J., Smith, T.P., Snelling, W.M., Stone, R.T., Waterman, R.C., White, S.N. 2009. The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution. Science. 324:522-528.Transition of genomic evaluation from a research project to a production system

- (Abstract Only)Wiggans, G.R., Van Raden, P.M., Bacheller, L.R., Ross  Jr, F.A., Sonstegard, T.S., Ge Meerman, G., Van Tassell, C.P. 2009. Transition of genomic evaluation from a research project to a production system. Journal of Dairy Science. 92(E-Suppl. 1):313-314(abstr. 278).Accelerating genetic improvement with SNP chips and DNA sequencing

- (Abstract Only)Van Tassell, C.P., Van Raden, P.M., Wiggans, G.R., Matukumalli, L.K., Schroeder, S.G., O'Connell, J., Schnabel, R.D., Taylor, J.F., Pollak, E.J., Munson, M., Bailey, D., Sonstegard, T.S. 2009. Accelerating genetic improvement with SNP chips and DNA sequencing. Joint Abstracts of the American Dairy Science and Society of Animal Science.Selection of single-nucleotide polymorphisms and quality of genotypes used in genomic evaluation of dairy cattle in the United States and Canada

- (Peer Reviewed Journal)Wiggans, G.R., Sonstegard, T.S., Van Raden, P.M., Matukumalli, L.K., Schnabel, R.D., Taylor, J.F., Schenkel, F.S., Van Tassell, C.P. 2009. Selection of single-nucleotide polymorphisms and quality of genotypes used in genomic evaluation of dairy cattle in the United States and Canada. Journal of Dairy Science. 92(7):3431-3436.Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds.

- (Peer Reviewed Journal)Gibbs, R., Van Tassell, C.P., Weinstock, G.M., Green, R.D., Hamernik, D.L., Kappes, S.M., Liu, G., Matukumalli, L.K., Matukumalli, A., Sonstegard, T.S., Silva, M.V. 2009. Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds. Science. 24:528-532.Profiling miRNA Expression in Bovine Tissues by Deep Sequencing

- (Abstract Only)Matukumalli, L.K., Alexander, L.J., Mcdaneld, T.G., Smith, T.P., Schroeder, S.G., Sonstegard, T.S., Van Tassell, C.P. 2009. Profiling miRNA Expression in Bovine Tissues by Deep Sequencing. Plant and Animal Genome Conference.GENOME-WIDE ASSOCIATION ANALYSIS IDENTIFIES LOCI FOR PRODUCTIVE TRAITS IN JERSEY BREED

- (Abstract Only)Silva, M.V., Van Raden, P.M., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Wiggans, G.R. 2009. GENOME-WIDE ASSOCIATION ANALYSIS IDENTIFIES LOCI FOR PRODUCTIVE TRAITS IN JERSEY BREED. Plant and Animal Genome Conference.Genome Signature of Artificial Selection for High Milk Yield in Holstein Cattle

- (Abstract Only)Sonstegard, T.S., Ma, L., Cole, J.B., Wiggans, G.R., Crooker, B.A., Van Tassell, C.P., Mariani, B.D., Da, Y. 2009. Genome Signature of Artificial Selection for High Milk Yield in Holstein Cattle. Plant and Animal Genome Conference Proceedings.Distribution and Location of Genetic Effects for Dairy Traits

- (Peer Reviewed Journal)Cole, J.B., Van Raden, P.M., O'Connell, J.R., Van Tassell, C.P., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Wiggans, G.R. 2009. Distribution and Location of Genetic Effects for Dairy Traits. Journal of Dairy Science. 92(6):2931-2946.Benefits from Cooperation in Genomics

- (Proceedings)Van Raden, P.M., Wiggans, G.R., Van Tassell, C.P., Sonstegard, T.S., Schenkel, F. 2009. Benefits from Cooperation in Genomics. Interbull Annual Meeting Proceedings. Uppsala, Sweden, Jan. 28–29, 6 pp.Design of the Illumina Porcine 50K+ SNP Iselect(TM) Beadchip and Characterization of the Porcine HapMap Population

- (Abstract Only)Groenen, M.A., Crooijmans, R.P., Ramos, A.M., Amaral, A.J., Kerstens, H., Bendixen, C., Hedegaard, J., Rohrer, G.A., Smith, T.P., Van Tassell, C.P., Taylor, J.F., Rothschild, M., Hu, Z., Nonneman, D.J., Beever, J., Archibald, A., Law, A., Milan, D., Hansen, M., Schook, L. 2009. Design of the Illumina Porcine 50K+ SNP Iselect(TM) Beadchip and Characterization of the Porcine HapMap Population. Plant and Animal Genome Conference Proceedings. 1/10-14/09, San Diego, CA. Abstract W493.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.Studies on cattle genomic structural variation provide insights into ruminant speciation and adaptation

- (Abstract Only)Liu, G., Zhu, B., Alexander, L.J., Matukumalli, L.K., Van Tassell, C.P., Sonstegard, T.S., Nonneman, D.J., Keele, J.W. 2009. Studies on cattle genomic structural variation provide insights into ruminant speciation and adaptation. [abstract]. Plant and Animal Genome Conference Proceedings. W093.Invited Review: Reliability of Genomic Predictions for North American Holstein Bulls

- (Peer Reviewed Journal)Van Raden, P.M., Van Tassell, C.P., Wiggans, G.R., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Schenkel, F.S. 2009. Invited Review: Reliability of Genomic Predictions for North American Holstein Bulls. Journal of Dairy Science. 92(1):16-24.Predicion of total genetic value using a 50K SNP chip in Holstein breed

- (Abstract Only)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L., Van Raden, P.M., Wiggans, G.R. 2008. Predicion of total genetic value using a 50K SNP chip in Holstein breed. Brazilian Animal Science Society.Prevalence of the prion gene E211K variant in U.S. cattle

- (Peer Reviewed Journal)Heaton, M.P., Keele, J.W., Harhay, G.P., Richt, J., Koohmaraie, M., Wheeler, T.L., Shackelford, S.D., Casas, E., King, D.A., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., Chase, C.C., Kalbfleisch, T.S., Smith, T.P., Clawson, M.L., Laegreid, W.W. 2008. Prevalence of the prion gene E211K variant in U.S. cattle. BioMed Central (BMC) Veterinary Research [journal online].  4:25.  Available: (http://www.biomedcentral.com/1746-6148/4/25).Prediction of total genetic value using genome-wide dense marker in Holstein breed by Bayesian method

- (Abstract Only)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matkumalli, L., Schroeder, S.G., Van Raden, P.M., Wiggans, G.R. 2008. Prediction of total genetic value using genome-wide dense marker in Holstein breed by Bayesian method. Congress of the Brazilian Animal Breeding Society.Effects of increased milking frequency on gene expression in the bovine mammary gland

- (Peer Reviewed Journal)Connor, E.E., Siferd, S., Elsasser, T.H., Clover, C.M., Van Tassell, C.P., Sonstegard, T.S., Fernandes, V., Capuco, A.V. 2008. Effects of increased milking frequency on gene expression in the bovine mammary gland. Biomed Central (BMC) Genomics. 9:362.A WHOLE-GENOME ASSOCIATION STUDY OF MAJOR DETERMINANTS FOR PARASITIC INFECTION IN ANGUS BREED

- (Abstract Only)Da Silva, M., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Schroeder, S.G., Gasbarre, L.C. 2008. A WHOLE-GENOME ASSOCIATION STUDY OF MAJOR DETERMINANTS FOR PARASITIC INFECTION IN ANGUS BREED. Animal Genetics International Conference Proceedings.Genomic signatures of artificial selection in U.S. Holstein cows

- (Abstract Only)Distribution and Location of Genetic Effects for Dairy Traits

- (Proceedings)Cole, J.B., Van Raden, P.M., O'Connell, J.R., Van Tassell, C.P., Sonstegard, T.S., Schnabel, R.D., Wiggans, G.R. 2009. Distribution and Location of Genetic Effects for Dairy Traits. International Committee on Animal Recording (ICAR). ICAR Tech Ser. 13:355–360. 2009.Genomic Data and Cooperation Result in Faster Progress

- (Proceedings)Van Raden, P.M., Van Tassell, C.P., Wiggans, G.R., Sonstegard, T.S., Schnabel, R.D., Taylor, J.F., Schenkel, F. 2009. Genomic Data and Cooperation Result in Faster Progress. International Committee on Animal Recording (ICAR). ICAR Tech Ser. 13:341–346. 2009.Genomic Evaluations in the United States and Canada: A Collaboration

- (Proceedings)Wiggans, G.R., Sonstegard, T.S., Van Raden, P.M., Matukumalli, L.K., Schnabel, R.D., Taylor, J.F., Chesnais, J.P., Schenkel, F.S., Van Tassell, C.P. 2009. Genomic Evaluations in the United States and Canada: A Collaboration. International Committee on Animal Recording (ICAR). ICAR Tech Ser. 13:347–353. 2009.Will genomic selection change the way sires are chosen, evaluated, sampled and marketed?

- (Popular Publication)Rogers, G.W., Van Tassell, C.P., Van Raden, P.M., Wiggans, G.R. 2008. Will genomic selection change the way sires are chosen, evaluated, sampled and marketed?. Genetic Trends. 60(3):6-8Estimates 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.An assessment of population structure in eight breeds of cattle using a whole genome SNP panel

- (Peer Reviewed Journal)Mckay, S.E., Schnabel, R.D., Murdoch, B.M., Matukumalli, L.K., Aerts, J., Coppieters, W., Crews, D., Neto, E.D., Gill, C.A., Gao, C., Mannen, H., Wang, Z., Van Tassell, C.P., Williams, J.L., Taylor, J.F., Moore, S.S. 2008. An assessment of population structure in eight breeds of cattle using a whole genome SNP panel. Journal of Animal Breeding and Genetics. 20(9):37.High throughput SNP discovery and validation in the pig: towards the development of a high density swine SNP chip

- (Abstract Only)Ramos, A.M., Crooijmans, R.P., Fonseca, A., Kerstens, H., Bendixen, C., Hedegaard, J., Rohrer, G.A., Smith, T.P., Van Tassell, C.P., Taylor, J.F., Rothschild, M., Nonneman, D.J., Beever, J., Archibald, A., Schook, L., Groenen, M.A. 2008. High throughput SNP discovery and validation in the pig: towards the development of a high density swine SNP chip. Proc., 2nd European Conference on Pig Genomics, June 4-5, 2008, Ljubljana, Slovenia. Poster #2234.Environmental sampling to predict fecal prevalence of Salmonella in an intensively monitored dairy herd

- (Peer Reviewed Journal)Van Kessel, J.S., Karns, J.S., Wolfgang, D.R., Hovingh, E., Jayarao, B.M., Van Tassell, C.P., Schukken, Y.H. 2008. Environmental sampling to predict fecal prevalence of Salmonella in an intensively monitored dairy herd. Journal of Food Protection. 71(10):1967-1973.Characterization of a novel microdeletion polymorphism on BTA5 in cattle

- (Peer Reviewed Journal)Liu, G., Li, R.W., Sonstegard, T.S., Matukumalli, L.K., Silva, M.V., Van Tassell, C.P. 2008. Characterization of a novel microdeletion polymorphism on BTA5 in cattle. Animal Genetics. 39(6):655-658.MAPPING QUANTITATIVE TRAIT LOCI ASSOCIATED WITH PARASITIC INFECTION USING 50K SNP CHIP IN ANGUS BREED

- (Abstract Only)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Matukumalli, L.K., Schroeder, S.G., Gasbarre, L.C. 2008. MAPPING QUANTITATIVE TRAIT LOCI ASSOCIATED WITH PARASITIC INFECTION USING 50K SNP CHIP IN ANGUS BREED. BARC Poster Day.ANALYSIS OF CATTLE COPY NUMBER VARIATION REVEALS INSIGHTS INTO THE EVOLUTION OF RUMINANTS

- (Abstract Only)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. [abstract]. 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 Only)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.Development and Applications of a Bovine 50,000 SNP Chip

- (Abstract Only)Taylor, J.F., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L., Smith, T.P., Allen, M.L. 2008. Development and Applications of a Bovine 50,000 SNP Chip. International Symposium of Animal Functional Genomics.Association analysis of bovine bactericidal/permeability-increasing protein gene polymorphisms with somatic cell score in Holstein cattle

- (Peer Reviewed Journal)Connor, E.E., Matukumalli, L.K., Chockalingham, A., Bannerman, D.D., Sonstegard, T.S., Thomas, E.D., Van Tassell, C.P. 2008. Association analysis of bovine bactericidal/permeability-increasing protein gene polymorphisms with somatic cell score in Holstein cattle. Journal of Dairy Science. 39:456-457.Reliability of genomic predictions for North American dairy bulls

- (Abstract Only)Van Raden, P.M., Van Tassell, C.P., Wiggans, G.R., Sonstegard, T.S., Schnabel, R.D., Schenkel, F. 2008. Reliability of genomic predictions for North American dairy bulls. Journal of Dairy Science. 91(E-Suppl. 1):305(abstr. 261).Selection of single nucleotide polymorphisms and genotype quality for genomic prediction of genetic merit in dairy cattle

- (Abstract Only)Wiggans, G.R., Sonstegard, T.S., Van Raden, P.M., Matukumalli, L.K., Schnabel, R.D., Taylor, J.F., Schenkel, F.S., Van Tassell, C.P. 2008. Selection of single nucleotide polymorphisms and genotype quality for genomic prediction of genetic merit in dairy cattle. Journal of Dairy Science. 91(E-Suppl. 1):507(abstr. 524).Heritability of Genetic Tolerance to Johne’s Disease

- (Abstract Only)Zanella, R., Settles, M., Fyock, T., Whitlock, R., Schukken, Y., Van Kessel, J.S., Karns, J.S., Hovingh, E., Smith, J., Van Tassell, C.P., Gaskins, C., Neibergs, H. 2008. Heritability of Genetic Tolerance to Johne’s Disease. Joint ADSA-ASAS Meeting, July 7th-11th, 2008, Indianapolis, Indiana. p.4.A high-resolution radiation hybrid map of the bovine genome

- (Peer Reviewed Journal)Grant, J.R., Stothard, P., Wang, Z., Cai, Z., Xu, J., Lin, G., Prasad, A., Moon, D., Sonstegard, T.S., Van Tassell, C.P. 2008. A high-resolution radiation hybrid map of the bovine genome. Plant and Animal Genome Conference Proceedings.Application of the BovineSNP50 assay for QTL mapping and prediction of genetic merit in Holstein cattle

- (Abstract Only)Schnabel, R.D., Van Tassell, C.P., Matukumalli, L., Sonstegard, T.S., Smith, T.P., Moore, S.S., Lawley, C.T., Taylor, J.F. 2008. Application of the BovineSNP50 assay for QTL mapping and prediction of genetic merit in Holstein cattle. Plant and Animal Genome Conference Proceedings.SNPs to Chips: Changing the paradigm of mapping and selection in cattle

- (Proceedings)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 Only)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 Only)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.QUANTITATIVE TRAIT LOCI ASSOCIATED WITH PARASITIC INFECTION IN ANGUS BREED

- (Abstract Only)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C. 2008. Quantitative trait loci associated with parasitic infection in angus breed  . Plant and Animal Genome Conference Proceedings.Characterization of the Cattle HapMap Population using the Illumina Bovine-50K SNP Chip

- (Abstract Only)Matukumalli, L.K., Schnabel, R.D., Lawley, C.T., Sonstegard, T.S., Smith, T.P., Moore, S.S., Taylor, J.F., Van Tassell, C.P. 2008. Characterization of the Cattle HapMap Population using the Illumina Bovine-50K SNP Chip. Plant and Animal Genome Conference.SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries

- (Peer Reviewed Journal)Van Tassell, C.P., Smith, T.P., Matukumalli, L.K., Taylor, J.F., Schnabel, R.D., Lawley, C.T., Haudenschild, C., Moore, S.S., Warren, W.C., Sonstegard, T.S.  2008. SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nature Methods. 5:247-252.Detection of germline and somatic copy number variations in cattle

- (Proceedings)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.Gene expression in bovine mammary gland in response to increased milking frequency as determined by microarray and SAGE

- (Other)Connor, E.E., Capuco, A.V., Siferd, S., Van Tassell, C.P., Sonstegard, T.S., Fernandes, V. 2008. Gene expression in bovine mammary gland in response to increased milking frequency as determined by microarray and SAGE. NIH Gene Expression Omnibus (GEO) Database. Accession number GSE9344.Whole genome linkage disequilibrium maps in cattle

- (Peer Reviewed Journal)Mckay, S.D., Schnabel, R.D., Murdoch, B.M., Matukumalli, L.K., Aerts, J., Coppieters, W., Crews, D., Neto, E.D., Gill, C.A., Gao, C., Mannen, H., Stothard, P., Wang, Z., Van Tassell, C.P., Williams, J.L., Taylor, J.F., Moore, S.S. 2007. Whole genome linkage disequilibrium maps in cattle. Journal of Animal Breeding and Genetics. 25(8):74.Prevalence of the prion gene E211K variant in U.S. cattle

- (Abstract Only)Heaton, M.P., Keele, J.W., Harhay, G.P., Richt, J., Koohmaraie, M., Wheeler, T.L., Shackelford, S.D., Casas, E., King, D.A., Sonstegard, T.S., Van Tassell, C.P., Neibergs, H.L., Chase, C.C., Kalbfleisch, T.S., Smith, T.P., Clawson, M.L., Laegreid, W.W. 2008. Prevalence of the prion gene E211K variant in U.S. cattle (abstract). Plant and Animal Genome XVI Conference. Poster No. P538.Effects of species combination on comparative analyses of conserved regulatory elements

- (Abstract Only)Liu, G., Yang, J., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Hanson, R.W. 2008. Effects of species combination on comparative analyses of conserved regulatory elements. [abstract]. Pacific Symposium on Biocomputing. p.100.Description and analysis of the Bovine Gene Atlas - An extensive compendium of bovine transcript profiles

- (Abstract Only)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.Generation of large numbers of SNP in cattle by coupling reduced genome representation with high throughput sequencing

- (Abstract Only)Smith, T.P., Matukumalli, L., Sonstegard, T.S., Schnabel, R., Taylor, J., Haudenschild, C., Lawley, C., Moore, S., Van Tassell, C.P. 2008. Generation of large numbers of SNP in cattle by coupling reduced genome representation with high throughput sequencing (abstract). Plant and Animal Genome XVI Conference Proceedings.  Poster No. P90.Bovine copy number variation and its implication in animal health

- (Abstract Only)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.COMPARATIVE TRANSCRIPTOME ANALYSIS OF IN VIVO AND IN VITRO PORCINE BLASTOCYSTS BY SMALL AMPLIFIED RNA SERIAL ANALYSIS OF GENE EXPRESSION (SAR-SAGE)

- (Peer Reviewed Journal)Miles, J.R., Blomberg, L.A., Krisher, R.L., Everts, R.E., Sonstegard, T.S., Van Tassell, C.P., Zuelke, K.A. 2008. Comparative transcriptome analysis of in vivo- and in vitro- produced porcine blastocysts by small amplified RNA-serial analysis of gene expression (SAR-SAGE). Molecular Reproduction and Development. 75:976-88.A physical map of the bovine genome

- (Peer Reviewed Journal)Snelling, W.M., Chiu, R., Schein, J.E., Hobbs, M., Abbey, C.A., Adelson, D.L., Aerts, J., Bennett, G.L., Bosdet, I.E., Boussaha, M., Brauning, R., Caetano, A.R., Costa, M.M., Crawford, A.M., Dalrymple, B.P., Eggen, A., Everts-Van Der Wind, A., Floriot, S., Gautier, M., Gill, C.A., Green, R.D., Holt, R., Jann, O., Jones, S.J., Kappes, S.M., Keele, J.W., De Jong, P.J., Larkin, D.M., Lewin, H.A., Mcewan, J.C., Mckay, S., Marra, M.A., Mathewson, C.A., Matukumalli, L.K., Moore, S.S., Murdoch, B., Nicholas, F.W., Osoegawa, K., Roy, A., Salih, H., Schibler, L., Schnabel, R.D., Silveri, L., Skow, L.C., Smith, T.P., Sonstegard, T.S., Taylor, J.F., Tellam, R., Van Tassell, C.P., Williams, J.L., Womack, J.E., Wye, N.H., Yang, G., Zhao, S. 2007. A physical map of the bovine genome. Genome Biology. 8:R165 (17 pp).Initial analysis of copy number variation in the cow genome

- (Abstract Only)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)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. 2008. Identification of conserved regulatory elements in mammalian promoter regions: a case study using the PCK1 promoter. Genomics, Proteomics and Bioinformatics. 6(3-4):129-143.Construction and application of a bovine high-density SNP assay

- (Abstract Only)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 Only)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 Only)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 Only)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.Genetic resistance to nematodes parasites in sheep: use of Box-Cox transformation in QTL mapping

- (Abstract Only)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.A Soybean Transcript Map:  Discovery and Mapping of Single Nucleotide Polymorphisms in Soybean Genes

- (Peer Reviewed Journal)Choi, I., Hyten, D.L., Matukumalli, L.K., Song, Q., Chaky, J.M., Quigley, C.V., Chase, K., Lark, K.G., Reiter, R.S., Yoon, M., Hwang, E., Yi, S., Young, N.D., Shoemaker, R.C., Van Tassell, C.P., Specht, J.E., Cregan, P.B. 2007. A soybean transcript map:  discovery and mapping of single nucleotide polymorphisms in soybean genes. Genetics. 176:685-696.Applied bovine genomics:  New opportunities for managing disease and intensifying production

- (Proceedings)Sonstegard, T.S., Matukumalli, L.K., Gasbarre, L.C., Silva, M.V., Van Tassell, C.P. 2007. Applied bovine genomics:  New opportunities for managing disease and intensifying production. [abstract]. Meeting Proceedings.Stimultaneous prediction of multiple traits using dense genome-wide SNP markers

- (Proceedings)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.Local Inflammation as a Possible Mechanism of Resistance to Gastrointestinal Nematodes in Angus Heifers

- (Peer Reviewed Journal)Li, R.W., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C. 2007. Local Inflammation as a Possible Mechanism of Resistance to Gastrointestinal Nematodes in Angus Heifers. Veterinary Parasitology. 145:100-107.DISCOVERY AND PROFILING OF BOVINE MICRORNAS FROM IMMUNE RELATED AND EMBRYONIC TISSUES

- (Peer Reviewed Journal)Coutinho, L.L., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2007. Discovery and profiling of bovine micrornas from immune related and embryonic tissues. Physiological Genomics. 29(1):35-43.A marker set for parentage-based DNA traceback in beef and dairy cattle

- (Abstract Only)Heaton, M.P., Snelling, W.M., Smith, T.P., Keele, J.W., Harhay, G.P., Wiedmann, R.T., Bennett, G.L., Freking, B.A., Van Tassell, C.P., Sonstegard, T.S., Gasbarre, L.C., Moore, S.S., Murdoch, B., Mckay, S.D., Kalbfleisch, T., Laegreid, W.W. 2007. A marker set for parentage-based DNA traceback in beef and dairy cattle [abstract].  Plant and Animal Genome XV Conference.  Poster No. P516.USE OF BOX-COX TRANSFORMATION IN ANALYSIS OF FECAL EGG COUNT DATA

- (Peer Reviewed Journal)Sonstegard, T.S., Marcos, D., Gasbarre, L.C., Van Tassell, C.P. 2006. Use of box-cox transformation in analysis of fecal egg count data. World Congress of Genetics Applied in Livestock Production. 8(15-35):1-4.ESTIMATES OF GENETIC PARAMETERS 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. 2006. Estimates of genetic parameters using random regression models for gastrointestinal helminthoid data in angus cattle. World Congress of Genetics Applied in Livestock Production. 8:15-34.ESTIMATES OF GENETIC PARAMETERS USING RANDOM REGRESSION MODELS FOR GASTROINTESTINAL HELMINTHOID DATA IN CATTLE

- (Proceedings)Silva, M.V., Van Tassell, C.P., Sonstegard, T.S., Cobuci, J.A., Gasbarre, L.C. 2006. Estimates of genetic parameters using random regression models for gastrointestinal helminthoid data in cattle. Brazilian Animal Science Society. CD-Rom - MEL036. pp. 105.SYSTEMATIC IDENTIFICATION OF REGULATORY ELEMENTS IN CATTLE.

- (Abstract Only)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.TRANSFER OF PERCHLORATE FROM DAIRY FEED TO MILK: POSSIBLE EXPOSURE SCENARIOS

- (Abstract Only)Rice, C., Abbott, L., Capuco, A.V., Hapeman, C.J., Baldwin, R.L., Hare Jr, W.R., Paape, M.J., Mccarty, G.W., Mcconnell, L.L., Van Tassell, C.P. 2006. Transfer of perchlorate from dairy feed to milk: possible exposure scenarios [abstract]. International Conference on The Future of Agriculture: Science, Stewardship and Sustainability (Aug 7-9, Sacramento, CA). 1:52.IDENTIFICATION OF ESTROGEN-RESPONSIVE GENES IN THE PARENCHYMA AND FAT PAD OF THE BOVINE MAMMARY GLAND BY MICROARRAY ANALYSIS

- (Peer Reviewed Journal)Li, R.W., Meyer, M.J., Van Tassell, C.P., Sonstegard, T.S., Connor, E.E., Van Amburgh, M.E., Boisclair, Y.R., Capuco, A.V. 2006. Identification of estrogen responsive genes in the parenchyma and fat pad of the bovine mammary gland by microarray analysis. Physiological Genomics 27(1):42-53.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.Resistance to Gastrointestinal nematodse of cattle: Identification of genomic regions affecting resistance and potential mechanisms

- (Abstract Only)Gasbarre, L.C., Sonstegard, T.S., Li, R.W., Araujo, R., Van Tassell, C.P. 2006. Resistance to Gastrointestinal nematodse of cattle: Identification of genomic regions affecting resistance and potential mechanisms [abstract]. American Association of Veterinary Parasitologists Proceedings.DIFFERENTIAL TURN-OVER PATTERNS OF TRANSPOSABLE ELEMENTS ACCOUNT FOR THE GENOME SIZE DIFFERENCES AMONG CATTLE, DOG AND HUMAN.

- (Abstract Only)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.GENETIC CORRELATIONS BETWEEN FIRST AND LATER PARITY CALVING EASE IN A SIRE-MATERNAL GRANDSIRE MODEL

- (Proceedings)Wiggans, G.R., Van Tassell, C.P., Cole, J.B., Thornton, L.L. 2006. Genetic correlations between first and later parity calving ease in a sire-maternal grandsire model.  8th World Congress of Genetics Applied in Livestock Production. Communication 01-92.IMPACT ON CALVING EASE EVALUATIONS OF MODIFYING OR EXCLUDING DATA FROM HERD-YEARS WITH ABNORMAL DISTRIBUTIONS OF SCORES

- (Proceedings)Van Tassell, C.P., Wiggans, G.R. 2006. Impact on calving ease evaluations of modifying or excluding data from herd-years with abnormal distributions of scores. 8th World Congress of Genetics Applied in Livestock Production. Communication 01-88.A MAMMARY GLAND BIOLOGIST'S PERSEPECTIVE ON FUNCTIONAL GENOMICS

- (Proceedings)Capuco, A.V., Meyer, M.J., Li, R.W., Connor, E.E., Van Tassell, C.P., Boisclair, Y.R., Van Amburgh, M.E., Sonstegard, T.S., Urban Jr, J.F. 2006. A mammary gland biologist's persepective on functional genomics. World Congress on Genetics Applied to Livestock Production. Belo Horizonte, Brazil, August 13-18, pp 01-6.BOS TAURUS 60MER OLIGONUCLEOTIDE MICROARRAY

- (Other)Li, R.W., Capuco, A.V., Van Tassell, C.P., Sonstegard, T.S., Connor, E.E., Gasbarre, L.C. 2006. Bos taurus 60mer oligonucleotide microarray. NIH Gene Expression Omnibus (GEO) Database.IN SILICO PREDICTION OF REGULATORY ELEMENTS BY PHYLOGENETIC FOOTPRINTING.

- (Abstract Only)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 Only)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.SMALL AMPLIFED RNA- SERIAL ANALYSIS OF GENE EXPRESSION (SAR-SAGE) FROM PORCINE BLASTOCYSTS PRODUCED IN VIVO OR IN VITRO

- (Abstract Only)This is a poster presentation for BARC Poster Day 4/26/2006.IDENTIFICATION OF BOVINE MICRORNAS

- (Abstract Only)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.IDENTIFICATION AND PROFILING OF BOVINE MICRORNAS FROM IMMUNE RELATED AND EMBRYONIC TISSUES.

- (Abstract Only)Coutinho, L.L., Matukumalli, L.K., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C., Capuco, A.V., Smith, T.P. 2006. Identification and profiling of bovine micrornas from immune related and embryonic tissues [abstract]. 17th Annual BARC Poster Day, Beltsville, MD. No 6.DETECTION OF QUANTITATIAVE TRAIT LOCI AFFECTING GROWTH AND REPRODUCTIVE TRAITS IN BOS INDICUS BEEF CATTLE (NELLORE)

- (Abstract Only)Avelar, G.A., Neto, L.R., Teixeira, L.A., Sonstegard, T.S., Van Tassell, C.P., Garcia, J.F. 2006. Detection of quantitatiave trait loci affecting growth and reproductive traits in bos indicus beef cattle (nellore) [abstract]. Animal Genetics International Conference Proceedings. pp 180.ADVANCEMENTS AND FUTURE CHALLENGES IN UNDERSTANDING MAMMARY GLAND FUNCTION

- (Abstract Only)Capuco, A.V., Connor, E.E., Meyer, M.J., Li, R.W., Van Tassell, C.P., Sonstegard, T.S., Van Amburgh, M.E., Boisclair, Y.R. 2006. Advancements and future challenges in understanding mammary gland function [abstract]. J. Dairy Sci. 89(Suppl. 1):409.TRANSCRIPTOME PROFILING OF THE TUBULAR PORCINE CONCEPTUS IDENTIFIES THE DIFFERENTIAL REGULATION OF GROWTH AN DDEVELOPMENTALLY ASSOCIATED GENES

- (Peer Reviewed Journal)Blomberg, L., Garrett, W.M., Guillomot, M., Miles, J.R., Sonstegard, T.S., Van Tassell, C.P., Zuelke, K.A. 2006. Transcriptome profiling of the tubular porcine conceptus identifies the differential regulation of growth and developmentally associated genes. Molecular Reproduction and Development. 73(12):1491-1502.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.CHARACTERIZATION OF 954 BOVINE FULL-CDS CDNA SEQUENCES

- (Peer Reviewed Journal)Harhay, G.P., Sonstegard, T.S., Keele, J.W., Heaton, M.P., Clawson, M.L., Snelling, W.M., Wiedmann, R.T., Van Tassell, C.P., Smith, T.P. 2005. Characterization of 954 bovine full-CDS cDNA sequences. Biomed Central (BMC) Genomics 6:166 (11 pp).FATE OF DIETARY PERCHLORATE IN LACTATING DAIRY COWS: RELEVANCE TO ANIMAL HEALTH AND LEVELS IN THE MILK SUPPLY.

- (Peer Reviewed Journal)Capuco, A.V., Rice, C., Baldwin, R.L., Bannerman, D.D., Paape, M.J., Hare, Jr., W.R., Kauf, A.C., McCarty, G.W., Hapeman, C.J., Sadeghi, A.M., Starr, J.L., McConnell, L.L., Van Tassell, C.P. 2005. Fate of dietary perchlorate in lactating dairy cows: Relevance to animal health and levels in the milk supply. Proceedings of the National Academy of Sciences. 102(45):16152-16157.GENETIC VARIABILITY OF A BOX TAURUS X BOS INDICUS CROSS POPULATION AND VALIDATION OF GENOMIC REGIONS INFLUENCING NEMATODE

- (Abstract Only)Benavides, M.V., Echevarria, F.A., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C. 2005. Genetic variability of a box taurus x bos indicus cross population and validation of genomic regions influencing nematode [absract]. Symposium of Genetic Research in Latin America in the Caribbean. p. 18.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.TOWARDS IDENTIFICATION OF THE GENETIC CONTROL OF RESISTANCE TO GASTROINTESTINAL HELMINTH INFECTIONS IN SHEEP AND MICE.

- (Abstract Only)Iraqi, F.A., Mugambi, J.M., Sonstegard, T.S., Garcia, F.J., Van Tassell, C.P., Hanotte, O., Nagda, S., Wakelin, D., Gibson, J.P., Behnke, J.M., Baker, L.R. 2005. Towards identification of the genetic control of resistance to gastrointestinal helminth infections in sheep and mice. Fourth All African Conference on Animal Agriculture. Tanzania, Abstract 45.IDENTIFICATION OF QUANTITATIVE TRAIT LOCI AFFECTING PARASITE INDICATOR TRAITS IN A DOUBLE BACKCROSS POPULATION OF SHEEP.

- (Abstract Only)Sonstegard, T.S., Iraqi, F., Mugambi, J., Van Tassell, C.P., Garcia, F., Hanotte, O., Nagda, S., Gibson, J., Baker, L. 2005. Identification of quantitative trait loci affecting parasite indicator traits in a double backcross population of sheep. [abstract].  ADSA/ASAS Joint Meeting, Minneapolis, MN, number 252.VALIDATION OF GENOMIC REGIONS INFLUENCING NEMATODE RESISTANCE IN A BOS TAURUS X BOS INDICUS CROSS POPULATION.

- (Proceedings)Benavides, M.V., Echevarria, F.A., Sonstegard, T.S., Van Tassell, C.P., Gasbarre, L.C. 2005. Validation of genomic regions influencing nematode resistance in a bos taurus x bos indicus cross population [abstract]. American Association of Veterinary Parasitologists Proceedings. p. 56.CHARACTERIZATION OF FEZL EFFECTS ON SCS IN A SAMPLE OF NORTH AMERICAN HOLSTEINS

- (Abstract Only)Sonstegard, T.S., Van Tassell, C.P. 2005. Characterization of fezl effects on scs in a sample of north american Holsteins [abstract]. ADSA/ASAS Joint Meeting. p. 248.DISCOVERY AND MAPPING OF FUNCTIONALLY IMPORTANT SNP IN COW GENOME

- (Abstract Only)Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2005. Discovery and mapping of functionally important snp in cow genome. BARC Poster Day. [Abstract].COMPARATIVE GENOMICS:GENOMIC VARIATION BETWEEN BOVINE AND HUMAN GENOMES.

- (Abstract Only)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.EST ANALYSIS O EIMERIA-STIMULATED INTETINAL INTRAEPITHELIAL LYMPHOCYTES IN CHICKENS

- (Peer Reviewed Journal)Min, W., Lillehoj, H.S., Ashwell, C.M., Van Tassell, C.P., Dalloul, R.A., Matukumalli, L.K., Han, J.Y., Lillehoj, E.P. 2005. Est analysis of Eimeria-stimulated intestinal intraepithelial lymphocytes in chickens. Molecular Biotechnology. 30:143-150.FINE-MAPPING MILK PRODUCTION QUANTITATIVE TRAIT LOCI ON BTA6: ANALYSIS OF THE BOVINE OSTEOPONTIN GENE.

- (Peer Reviewed Journal)Schnabel, R.D., Jong-Joo, K., Ashwell, M.S., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Taylor, J.F. 2005. Fine-mapping milk production quantitative trait loci on bta6: analysis of the bovine osteopontin gene. Proceedings of the National Academy of Sciences. 102:6896-6901.OPTIMIZING BOVINE SNP DISCOVERY EFFORTS

- (Abstract Only)Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2005. Optimizing bovine SNP discovery efforts [abstract]. Recomb2005. p. 227.EFFECTS OF COMPLEX VERTEBRAL MALFORMATION GENE ON PRODUCTION AND REPRODUCTION

- (Abstract Only)Kuhn, M.T., Hutchison, J.L., Van Tassell, C.P. 2005. Effects of complex vertebral malformation gene on production and reproduction [abstract]. Journal of Dairy Science. 88(Suppl. 1):140.ASSESSING THE RELATIONSHIP BETWEEN RUMINAL PERCHLORATE INFUSION IN DAIRY COWS AND ITS LEVELS IN MILK

- (Abstract Only)Capuco, A.V., Baldwin, R.L., Rice, C., Hare Jr, W.R., Paape, M.J., Bannerman, D.D., Kauf, A.C., Mccarty, G.W., Sadeghi, A.M., Starr, J.L., Mcconnell, L.L., Hapeman, C.J., Van Tassell, C.P. 2005. Assessing the relationship between ruminal perchlorate infusion in dairy cows and its levels in milk [abstract]. Journal of Dairy Science. 88(1):237.FINE-MAPPING MILK PRODUCTION QTL ON BTA6: ANALYSIS OF THE BOVINE OSTEOPONTIN GENE

- (Abstract Only)Schnabel, R.D., Ashwell, M.S., Sonstegard, T.S., Connor, E.E., Van Tassell, C.P., Kim, J., Taylor, J.F. 2005. Fine-mapping milk production qtl on bta6: analysis of the bovine osteopont [abstract]. Plant and Animal Genome XIII. p. 532.CHARACTERIZATION OF A NORMALIZED CDNA LIBRARY FROM BOVINE INTESTINAL MUSCLE AND EPITHELIAL TISSUES

- (Peer Reviewed Journal)Baumann, R.G., Baldwin, R.L., Van Tassell, C.P., Matukumalli, L.K., Sonstegard, T.S. 2005. Characterization of a normalized cDNA library from bovine intestinal muscle and epithelial tissues. Animal Biotechnology. 16(1):17-30.SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) DURING ELONGATION OF PERI-IMPLANTATION PORCINE TROPHECTODERM (CONCEPTUS)

- (Peer Reviewed Journal)Blomberg, L., Long, E.L., Sonstegard, T.S., Van Tassell, C.P., Dobrinsky, J.R., Zuelke, K.A. 2004. Serial analysis of gene expression (sage) during elongation of peri-implantation porcine trophectoderm (conceptus). Physiological Genomics. 20:188-194.USING GENOMICS TO IDENTIFY GENES AFFECTING RESISTANCE TO NEMATODE INFECTIONS IN RUMINANTS

- (Proceedings)Gasbarre, L.C., Sonstegard, T.S., Van Tassell, C.P., Araujo, R. 2004. Using genomics to identify genes affecting resistance to nematode infections in ruminants. In: Mendoza, P. ed. Preceedings of the Mexican Association of Veterinary Parasitologists. October 20-22, 2004, Colima, Mexico. p. 20-26.SAGE ANALYSIS OF TRANSITIONS IN THE PORCINE CONCEPTUS TRANSCRIPTOME DURING TROPHECTODERM ELONGATION

- (Abstract Only)Blomberg, L., Sonstegard, T.S., Van Tassell, C.P., Zuelke, K.A. 2005. Sage analysis of transitions in the porcine conceptus transcriptome during trophectoderm elongation [abstract]. Journal Of Reproduction, Fertility And Development. 17:257.CHARACTERIZATION OF A NORMALIZED CDNA LIBRARY FROM BOVINE INTESTINAL MUSCLE AND EPITHELIAL TISSUES

- (Abstract Only)Baumann, R.G., Baldwin, R.L., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L. 2004. Characterization of a normalized cDNA library from bovine intestinal muscle and epithelial tissues [abstract]. 7th International Meeting of the Microarray Gene Expression Data Society. p. 24.DEVELOPMENT OF ALGORITHMS FOR PREDICTION AND VALIDATION OF POLYMORPHISMS IN POLYPLOIDS (SOYBEAN) USING EST DATA

- (Abstract Only)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.APPLICATION OF MACHINE LEARNING PROGRAMS TOWARDS ACCELERATING POLYMORPHISMS DISCOVERY

- (Abstract Only)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.CONSTRUCTION AND ANALYSIS OF A CDNA LIBRARY GENERATED FROM INTESTINAL MUSCLE AND EPITHELIAL TISSUES OF HOLSTEIN CATTLE: OVER 20,000 5'-EST SEQUENCES

- (Germplasm Release)Baumann, R.G., Baldwin, R.L., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L. 2004. Construction and analysis of a cDNA library generated from intestinal muscle and epithelial tissues of holstein cattle: over 20,000 5'-est sequences. Germplasm Release.BOVINE BAC END SEQUENCES FROM RPCI-42 LIBRARY

- (Germplasm Release)Aycock, M.M., Najar, F.Z., Gasbarre, L.C., Van Tassell, C.P., Sonstegard, T.S., Connor, E.E., Capuco, A.V., Roe, B.A. 2004. Bovine bac end sequences from rpci-42 library. Germplasm Release.OPTIMUM GENETIC CHOICES FOR DAIRY PRODUCERS	USING GRAZING PRACTICES

- (Abstract Only)Norman, H.D., Van Tassell, C.P., VanRaden, P.M. 2004. Optimum genetic choices for dairy producers using grazing practices [abstract]. Proceedings of 2004 Conference of the American Forage and Grassland Council 13:20, 219.SEQUENCE ANALYSIS OF ESTS UNIQUE TO THE BOS TAURUS GENE INDEX

- (Germplasm Release)Connor, E.E., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K. 2004. Sequence analysis of ests unique to the bos taurus gene index. Germplasm Release. Accession numbers CN779616-CN779642.PRODUCTION OF EST FROM CDNA LIBRARIES DERIVED FROM IMMUNOLOGICALLY ACTIVATED BOVINE ABOMASUM

- (Germplasm Release)Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Harhay, G.P., Bosak, S., Rubenfield, M., Gasbarre, L.C. 2004. Production of est from cdna libraries derived from immunologically activated bovine abomasum. Germplasm Release.PRODUCTION OF EST FROM CDNA LIBRARIES DERIVED FROM IMMUNOLOGICALLY ACTIVATED BOVINE SMALL INTESTINE

- (Germplasm Release)Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Harhay, G.P., Bosak, S., Rubenfield, M., Gasbarre, L.C. 2004. Production of est from cdna libraries derived from immunologically activated bovine small intestine. Germplasm Release.BOVINE GENOMICS UPDATE: MAKING A COW JUMP OVER THE MOON

- (Review Article)Sonstegard, T.S., Van Tassell, C.P. 2004. Bovine genomics update: making a cow jump over the moon. Genetical Research 84, pp. 3-9.ANALYSIS OF EXPRESSED SEQUENCE TAGS (EST) CDNA LIBRARY FROM EIMERIA-ACTIVATED INTESTINAL INTRA-EPITHELIAL LYMPHOCYTES

- (Abstract Only)Lillehoj, H.S., Min, W., Ashwell, C.M., Van Tassell, C.P. 2004. Analysis of expressed sequence tags (est) cdna library from eimeria-activated intestinal intra-epithelial lymphocytes. Avian Immunology Group Meeting, p. 60.IN SILICO PREDICTION AND VALIDATION OF POLYMORPHISMS IN SOYBEAN GENOME USING EST DATA

- (Abstract Only)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.DETECTION OF QUANTITATIVE TRAIT LOCI AFFECTING CONFORMATION TRAITS IN HOLSTEIN CATTLE

- (Abstract Only)Ashwell, M.S., Heyen, D.W., Sonstegard, T.S., Van Tassell, C.P., Lewin, H.A. 2005. Detection of quantitative trait loci affecting conformation traits in holstein cattle [abstract]. American Dairy Science Association.CONSTRUCTION OF A NORMALIZED CDNA LIBRARY OF THE BOVINE INTESTINE: 8BOV-GENE IDENTIFICATION AND METABOLIC PATHWAY DISCOVERY

- (Abstract Only)Baumann, R.G., Baldwin, R.L., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L. 2004. Construction of a normalized cDNA library of the bovine intestine: 8BOV - Gene identification and metabolic pathway discovery [abstract]. BARC Poster Day. p. 32.IMPACT ON CALVING EASE EVALUATIONS OF EXCLUDING HERDS WITH ABNORMAL DISTRIBUTION OF SCORES

- (Abstract Only)Van Tassell, C.P., Wiggans, G.R., Thornton, L.L.M. 2004. Impact on calving ease evaluations of excluding herds with abnormal distribution of scores [abstract]. Journal of Dairy Science. 87(Suppl. 1):84-85.CHARACTERIZATION OF OPEN READING FRAME EXPRESSED SEQUENCE TAGS GENERATED FROM BOS INDICUS AND BOS TAURUS MAMMARY GLAND CDNA LIBRARIES

- (Peer Reviewed Journal)Da Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Shade, L.L., Matukamalli, L.K., Wood, D.L., Capuco, A.V., Brito, M.P., Connor, E.E., Martinez, M.L. 2004. Characterization of open reading frame expressed sequence tags generated from bos indicus and bos taurus mammary gland cDNA libraries. Animal Genetics 35:213-219.USING HOST GENOMICS TO CONTROL NEMATODE INFECTIONS

- (Peer Reviewed Journal)Gasbarre, L.C., Sonstegard, T.S., Van Tassell, C.P., Araujo, R. 2004. Using host genomics to control nematode infections. Veterinary Parasitology 125, pp. 155-161.EST-PAGE - A SIMPLE WEB INTERFACE FOR MANAGING AND ANALYZING EST DATA

- (Peer Reviewed Journal)Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2004. Est-page - a simple web interface for managing and analyzing est data. Bioinformatics, 20:286-288.EST-PAGE: A TOOL FOR MANAGING AND ANALYZING EST DATA

- (Abstract Only)Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2003. Est-page: a tool for managing and analyzing EST data [abstract]. TIGR XV GSAC Conference, September 2003.MAPPING QUANTITATIVE TRAIT LOCI FOR DAIRY FORM IN REGIONS OF CHROMOSOME 27 IN TWO FAMILIES OF HOLSTEIN

- (Peer Reviewed Journal)Van Tassell, C.P., Sonstegard, T.S., Ashwell, M.S. 2004. Mapping quantitative trait loci for dairy form in regions of chromosome 27 in two families of holstein. Journal of Dairy Science. 87(2):450-457.IDENTIFICATION OF PARALOGS AND SNP IN THE ALLOPOLYPLOID SOYBEAN GENOMICS FROM EST DATA.

- (Abstract Only)Van Tassell, C.P., Cregan, P.B., Matukumalli, L.K., Grenfenstette, J.J., Choi, I. 2003. Identification of paralogs and snp in the allopolyploid soybean genomics from est data [abstract]. Proceedings of International Meeting on Single Nucleotide Polymorphism and Complex Genome Analysis. Abstract 64.USING HOST GENOMICS TO CONTROL NEMATODE INFECTIONS

- (Abstract Only)GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. USING HOST GENOMICS TO CONTROL NEMATODE INFECTIONS. World Association for the Advancement of Veterinary Parasitology. pp. 119, 2003.CHARACTERIZATION OF ORESTES CDNA LIBRARIES GENERATED FROM MAMMARY GLAND TISSUES OF HOLSTEIN (BOS TAURUS) AND GIR (BOS INDICUS) CATTLE.

- (Abstract Only)Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Shade, L.L., Matukumalli, L., Wood, D.L., Capuco, A.V., Brito, M.A., Martinez, M.L., Connor, E.E. 2003. Characterization of ORESTES cDNA libraries generated from mammary gland tissues of Holstein (Bos taurus) and Gir (Bos indicus) cattle [abstract]. Animal Production World Conference Proceedings.PHYSICAL AND LINKAGE MAPPING OF MAMMARY-DERIVED EXPRESSED SEQUENCE TAGS IN CATTLE.

- (Peer Reviewed Journal)Connor, E.E., Sonstegard, T.S., Keele, J.W., Bennett, G.L., Williams, J.L., Papworth, R., Van Tassell, C.P., Ashwell, M.S. 2004. Physical and lindage mapping of mammary-derived expressed sequence tags (EST) in cattle. Genomics. vol. 83, pp.148-152.MAPPING QUANTITATIVE TRAIT LOCUS ASSOCIATED WITH RESISTANCE TO AVIAN COCCIDIOSIS AND GROWTH

- (Peer Reviewed Journal)Zhu, J.J., Lillehoj, H.S., Allen, P.C., Van Tassell, C.P., Sonstegard, T.S., Cheng, H.H., Pollock, D., Sadjadi, M., Min, W., Emara, M.G. 2003. Mapping quantitative trait locus associated with resistance to avian coccidiosis and growth. Poultry Science 82:9-16.DETECTION OF QUANTITATIVE TRAIT LOCI AFFECTING MILK PRODUCTION, HEALTH, AND REPRODUCTIVE TRAITS IN HOLSTEIN CATTLE

- (Peer Reviewed Journal)Ashwell, M.S., Heyen, D.W., Sonstegard, T.S., Van Tassell, C.P., Da, Y., Van Raden, P.M., Ron, M., Weller, J.I., Lewin, H.A. 2004. Detection of quantitative trait loci affecting milk production,health, and reproductive traits in Holstein cattle. Journal of Dairy Science. vol. 87(2): pp. 468-75.IMPLEMENTATION OF A SIRE-MATERNAL GRANDSIRE MODEL FOR EVALUATION OF CALVING EASE IN THE US

- (Peer Reviewed Journal)Van Tassell, C.P., Wiggans, G.R., Misztal, I. 2003. Implementation of a sire-maternal grandsire model for evaluation of calving ease in the United States. Journal of Dairy Science. 86(10):3366-3373.DEVELOPMENT OF A SIMPLE WEB INTERFACE FOR MANAGING AND ANALYZING EST DATA

- (Abstract Only)Matukumalli, L.K., Grefenstette, J.J., Sonstegard, T.S., Van Tassell, C.P. 2003. Development of a simple web interface for managing and analyzing est data [abstract]. BARC Poster Day.SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) DURING ELONGATION OF  PERIIMPLANTATION PORCINE EMBRYOS

- (Abstract Only)USE OF MULTILOCUS ITERATIVE ALLELIC PEELING OF MARKER GENOTYPES FOR QUALITY CONTROL IN AN EXPERIMENTAL POPULATION DIVERGENTLY SEECTED FOR RESISTANCE TO GASTROINTESTINAL NEMATODES.

- (Abstract Only)SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) DURING ELONGATION OF  PERIIMPLANTATION PORCINE EMBRYOS

- (Abstract Only)Blomberg, L., Long, E.L., Sonstegard, T.S., Van Tassell, C.P., Dobrinsky, J.R., Zuelke, K.A. 2003. Serial analysis of gene expression (sage) during elongation of  periimplantation porcine embryos. Experimental Biology.SINGLE NUCLEOTIDE POLYMORPHISMS (SNPS) IN SOBYEAN

- (Peer Reviewed Journal)Cregan, P.B., Fickus, E.W., Hyatt, S.M., Zhu, Y.L., Song, Q.J., Young, N.P., Grimm, D.R., Hyten, D.L., Van Tassell, C.P., Matukumalli, L.K. Single nucleotide polymorphisms (snps) in sobyean. Genetics.SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) IN TURKEY SPERM STORAGE TUBULES IN THE PRESENCE AND ABSENCE OF RESIDENT SPERM.

- (Peer Reviewed Journal)Long, E.L., Sonstegard, T.S., Long, J.A., Van Tassel, C.P., and Zuelke, K.A.  (2003).  Serial analysis of gene expression (SAGE) in turkey sperm storage tubules in the presence and absence of sperm.  Biol. Reprod. 69:469-474.CONSTRUCTION AND CHARACTERIZATION OF CDNA LIBRARIES GENERATED FROM MAMMARY GLAND TISSUES OF HOLSTEIN (BOS TAURUS) AND GIR (BOS INDICUS) CATTLE

- (Germplasm Release)D.A. Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Matukumalli, L.K., Wood, D.L., Capuco, A.V., Brito, M.A., Martinez, M.L., Connor, E.E., Machado, M.A. 2003. Construction and characterization of cDNA Libraries generated from mammary gland tissues of Holstein (Bos taurus) AND GIR (Bos indicus) cattle. Germplasm Release. Accession Numbers CA998517-CA995586, CB040527-CB042862, CB059218-CB063292.SEQUENCING OF EXPRESSED SEQUENCE TAGS (ESTS) UNIQUE TO THE BOS TAURUS GENE INDEX

- (Germplasm Release)Connor, E.E., Sonstegard, T.S., Van Tassell, C.P. 2002. Sequencing of expressed sequence tags (ests) unique to the bos taurus gene index. Germplasm Release. Accession Numbers CA923315-CA923384.CALVING EASE (CO)VARIANCE COMPONENTS FOR A SIRE-MATERNAL GRANDSIRE EVALUATION MODEL

- (Peer Reviewed Journal)Wiggans, G.R., Misztal, I. Van Tassell, C.R., 2003Calving ease (Co)variance components for a sire-maternal grandsire threshold model. J Dairy Sci. 6(5):1845-8.ECONOMIC EVALUATIN OF HOLESTEIN SIRES SELECTION STRATEGIES FOR HERDS IN ITALY, MEXICO, THE NETHERLANDS AND THE UNITED STATES USING STOCHASTIC SIMULATION.

- (Peer Reviewed Journal)Montaldo, H.H., Keown, J.F., Van Vleck, L.D., Van Tassell, C.P. 2004. Economic evaluatin of holestein sires selection strategies for herds in Italy, Mexico, The Netherlands and the United States using stochastic simulation.. Veterinaria Mexico.ECONOMIC EVALUATION OF HOLSTEIN SIRE SELECTION STRATEGIES FOR HERDS IN ITALY, MEXICO, THE NETHERLANDS AND THE UNITED STATES USING STOCHASTIC SIMULATION

- (Peer Reviewed Journal)Economic evaluation of Holstein sire selection strategies for herds in Italy, Mexico, The Netherlands and the United States using stochastic simulation. Veterinaria - Mexico. 2003. v. 34(2). p. 179-201.COMPARISON OF DYSTOCIA EVALUATIONS FROM SIRE AND SIRE-MATERNAL GRANDSIRE   THRESHOLD MODELS

- (Proceedings)Wiggans, G.R., Van Tassell, C.P., Philpot, J.C., Misztal, I. Comparison of dystocia evaluations from sire and sire-maternal grandsire threshold models. World Congress of Genetics Applied in Livestock Production.ENHANCING QUALITY OF DYSTOCIA DATA BY INTEGRATION INTO A NATIONAL DAIRY CATTLE PRODUCTION DATABASE

- (Proceedings)VAN TASSELL, C.P., WIGGANS, G.R. ENHANCING QUALITY OF DYSTOCIA DATA BY INTEGRATION INTO A NATIONAL DAIRY CATTLE PRODUCTION DATABASE. WORLD CONGRESS OF GENETICS APPLIED IN LIVESTOCK PRODUCTION. vol. 32, pp. 557-560. 2002.SERIAL ANALYSIS OF GENE EXPRESSION (SAGE) IN PREIMPLANTATION STAGE SWINE EMBRYOS

- (Proceedings)Serial analysis of gene expression (sage) in preimplantation stage swine embryos. (2004). IN: Biological Resource Management in Agriculture: Mammalian Embryo Genomics, Watson, A., Editor, OECD Publications, Paris, France, pp. 47-85.A GENOME SCAN FOR GASTROINTESTINAL NEMATODE RESISTANCE IN CATTLE.

- (Abstract Only)Sonstegard, T.S., Gasbarre, L.C., Van Tassell, C.P., Thallman, R.M., Padilha, T. 2002. A genome scan for gastrointestinal nematode resistance in cattle [abstract]. Animal Genetics International Conference Proceedings.SAMPLING GENE EXPRESSION FROM MAMMARY TISSUES BY EST SEQUENCING OR ORESTES CDNA LIBRARIES FROM HOLSTEIN AND GIR CATTLE.

- (Abstract Only)Damota, A.F., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Capuco, A.V., Brito, M.P., Machado, M.A., Martinez, M.L., Coutinho, L.L. 2002. Sampling gene expression from mammary tissues by est sequencing or orestes cdna libraries from holstein and gir cattle.. Animal Genetics International Conference Proceedings.MULTILOCUS ITERTAIVE ALLETIC PEELING OF MARKER GENOTYPES GENERATED FROM A LINEBRED ANGUS POPULATION DIVERGENTLY SELECTED FOR RESISTANCE TO GATROINTESTINAL NEMATODES.

- (Abstract Only)Van Tassell, C.P., Thallman, R.M., Sonstegard, T.S., Gasbarre, L.C., Padilha, T. 2002. Multilocus itertaive alletic peeling of marker genotypes generated from a linebred angus population divergently selected for resistance to gatrointestinal nematodes. International Conference on Animal Genetics.IDENTIFICATION OF GENOMIC REGIONS AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE

- (Abstract Only)GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. IDENTIFICATION OF GENOMIC REGIONS AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE. AMERICAN ASSOCIATION OF VETERINARY PARASITOLOGISTS PROCEEDINGS. pp. 47, 2002.FINE-MAPPING OF QTL AFFECTING PROTEIN PERCENT AND FAT PERCENT ON BTA6 IN A POPULAR U.S. HOLSTEIN FAMILY

- (Proceedings)Ashwell, M.S., Schnabel, R.D., Sonstegard, T.S., Van Tassell, C.P. 2002. Fine-mapping of qtl affecting protein percent and fat percent on bta6 in a popular u.s. holstein family. World Congress of Genetics Applied in Livestock Production. 31:123-126.DETECTION OF QTL AFFECTING PARASITE RESISTANCE IN A SELECTED HERD OF ANGUS CATTLE

- (Proceedings)GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. DETECTION OF QTL AFFECTING PARASITE RESISTANCE IN A SELECTED HERD OF ANGUS CATTLE. WORLD CONGRESS OF GENETICS APPLIED IN LIVESTOCK PRODUCTION. 2002.DEVELOPMENT OF A RESOURCE POPULATION TO DETECT QTL AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE

- (Abstract Only)GASBARRE, L.C., SONSTEGARD, T.S., VAN TASSELL, C.P., PADILHA, T. DEVELOPMENT OF A RESOURCE POPULATION TO DETECT QTL AFFECTING RESISTANCE TO GASTROINTESTINAL PARASITES OF CATTLE. ANIMAL GENETICS INTERNATIONAL CONFERENCE PROCEEDINGS. pp. 79, 2002.DEVELOPMENT OF A CATTLE POPULATION FOR MAPPING ECONOMIC TRAIT LOCI (ETL) AFFECTING PARASITE RESISTANCE.

- (Abstract Only)Sonstegard, T.S., Gasbarre, L.C., Van Tassell, C.P., Padilha, T. 2002. Development of a cattle population for mapping economic trait loci (ETL) affecting parasite resistance [abstract]. American Society Of Animal Science.CONSTRUCTION AND CHARACTERIZATION OF ORESTES CDNA LIBRARIES GENERATED FROM BOVINE MAMMARY GLAND TISSUES.

- (Abstract Only)Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Capuco, A.V., Brito, A.P., Machado, M.A., Martinez, M.L., Coutinho, L.L. 2002. Construction and characterization of orestes cdna libraries generated from bovine mammary gland tissues [abstract]. American Society of Animal Science.IMPROVEMENTS IN DYSTOCIA NATIONAL GENETIC EVALUATION SYSTEM AND DATA PROCESSING

- (Abstract Only)VAN TASSELL, C.P., WIGGANS, G.R., PHILPOT, J.C., MISZTAL, I. IMPROVEMENTS IN DYSTOCIA NATIONAL GENETIC EVALUATION SYSTEM AND DATA PROCESSING. JOURNAL OF DAIRY SCIENCE. vol. 85 (Suppl. 1), pp. 33.CHARACTERIZATION OF ORESTES CDNA LIBRARIES GENERATED FROM MAMMARY GLAND TISSUES OF GIR CATTLE.

- (Abstract Only)Mota, A.F., Sonstegard, T.S., Van Tassell, C.P., Connor, E.E., Capuco, A.V., Brito, M., Martinez, M.L., Coutinho, L.L. 2002. Characterization of orestes cdna libraries generated from mammary gland tissues of gir cattle.. BARC Poster Day.ANALYSIS OF BOVINE MAMMARY GLAND EST AND FUNCTIONAL ANNOTATION OF THE BOS TAURUS GENE INDEX

- (Peer Reviewed Journal)Sonstegard, T.S., Capuco, A.V., White, J., Van Tassell, C.P., Connor, E.E., Cho, J., Sultan, R., Shade, L.L., Wray Jr, J.E., Wells, K.D. 2002. Analysis of bovine mannary gland EST and functional annotation of the BOS taurus gene index. Mammalian Genome. vol.13, pp. 373-379.MAPPING GENES RELATED TO DISEASE RESISTANCE AND MILK PRODUCTION IN U.S. HOLSTEINS

- (Proceedings)ASHWELL, M.S., SONSTEGARD, T.S., VAN TASSELL, C.P. MAPPING GENES RELATED TO DISEASE RESISTANCE AND MILK PRODUCTION IN U.S. HOLSTEINS. AMERICAN COLLEGE OF VETERINARY INTERNAL MEDICINE. vol. 20, pp. 264-66, 2002.APPLYING GENOMICS TO DAIRY CATTLE HEALTH

- (Review Article)GENETICS, CATTLE GENOMICS.

- (Review Article)VAN TASSELL, C.P., SONSTEGARD, T.S., KAPPES, S.M., ASHWELL, M.S., CONNOR, E.E. GENETICS, CATTLE GENOMICS. ENCYCLOPEDIA OF DAIRY SCIENCE. vol. 2, pp. 1219-1224, 2002.GENOMIC TOOLS TO IMPROVE PARASITE RESISTANCE.

- (Abstract Only)SONSTEGARD, T.S., GASBARRE, L.C., VAN TASSELL, C.P., PADILHA, T. GENOMIC TOOLS TO IMPROVE PARASITE RESISTANCE. AMERICAN ASSOCIATION OF VETERINARY PARASITOLOGISTS PROCEEDINGS. pp. 46, 2001.A GENOME SCAN TO IDENTIFY QUANTITATIVE TRAIT LOCI AFFECTING ECONOMICALLY IMPORTANT TRAITS IN A US HOLSTEIN POPULATION

- (Peer Reviewed Journal)Ashwell, M.S., Van Tassell, C.P., Sonstegard, T.S. 2001. A genome scan to identify quantitative trait loci affecting economically important traits in a us holstein population. Journal of Dairy Science. 84(11):2535-2542.A LOCUS SIGNIFICANTLY AFFECTING DISEASE RESISTANCE TO AVIAN COCCIDIOSIS IDENTIFIED WITH GENOME SCAN USING MICROSATELLITE MARKERS

- (Abstract Only)Zhu, J.J., Lillehoj, H.S., Allen, P.C., Van Tassell, C.P., Sonstegard, T.S., Chang, H.H., Emara, M.G. 2001. A locus significantly affecting disease resistance to avian coccidiosis identified with genome scan using microsatellite markers. BARC Poster Day.DAIRY CATTLE GENOMICS:TOOLS TO ACCELERATE GENETIC IMPROVEMENT

- (Review Article)Sonstegard, T.S., Van Tassell, C.P., Ashwell, M.S. 2001. Dairy cattle genomics:tools to accelerate genetic improvement. Journal of Animal Science. 79:E307-E315.GENETIC RESOURCES FOR CURRENT AND FUTURE DEVELOPMENT OF HOLSTEIN-FRIESIAN  DAIRY CATTLE

- (Proceedings)CONSENSUS AND COMPREHENSIVE LINKAGE MAPS OF THE BOVINE CHROMOSOME 17.

- (Peer Reviewed Journal)Sonstegard, T.S., Bendixen, C., Bennett, G.L., Kalm, E., Kappes, S.M., Lewin, H.A., Lien, S., Nielsen, V.H., Olsaker, I., Van Tassell, C.P. 2001. Consensus and comprehensive linkage maps of the bovine chromosome 17. Animal Genetics. 32(2):112-113.CONSENSUS AND COMPREHENSIVE LINKAGE MAPS OF BOVINE CHROMOSOME 25

- (Peer Reviewed Journal)Sonstegard, T.S., Bennett, G.L., Kalm, E., Kappes, S.M., Lewin, H.A., Olsaker, I., Schumutz, S., Thomsen, H., Vage, D.I., Van Tassell, C.P. 2001. Consensus and comprehensive linkage maps of bovine chromosome 25. Animal Genetics. 32(2):114-115.CONSENSUS AND COMPREHENSIVE LINKAGE MAPS OF THE BOVINE SEX CHROMOSOMES

- (Peer Reviewed Journal)Sonstegard, T.S., Barendse, W., Bennett, G.L., Brockmann, G.A., Davis, S., Droegemuller, C., Kalm, E., Kuehn, C., Kappes, S.M., Van Tassell, C.P. 2001. Consensus and comprehensive linkage maps of the bovine sex chromosomes. Animal Genetics. 32(2):115-117.CHARACTERIZATION OF GENE EXPRESSION PATTERNS IN THE BOVINE MAMMARY GLAND

- (Abstract Only)Sonstegard, T.S., Capuco, A.V., Wells, K.D., Ashwell, M.S., Van Tassell, C.P. 2001. Characterization of gene expression patterns in the bovine mammary gland [abstract]. Genome biology and technology conference, Marco Island, FL.DIRECT SELECTION FOR GENETIC IMPROVEMENT OF HEALTH AND FITNESS TRAITS IN   THE UNITED STATES DAIRY POPULATION

- (Proceedings)CHARACTERIZATION OF SEQUENCE DATA FROM A NORMALIZED BOVINE MAMMARY GLAND CDNA LIBRARY

- (Abstract Only)Van Tassell, C.P., Sonstegard, T.S., Capuco, A.V., Ashwell, M.S., Wells, K.D. 2000. Characterization of sequence data from a normalized bovine mammary gland cdna library [abstract]. Beltsville Symposium XXIV - Healthy Animals 2000. p. 19.CHARACTERIZATION OF DATA AND PROPOSED EDITS FOR THE NATIONAL CALVING EASE  GENETIC EVALUATION

- (Abstract Only)Van Tassell, C.P., Sattler, C.G. 2000. Characterization of data and proposed edits for the national calving ease  genetic evaluation. American Dairy Science Association Proceedings. JOURNAL OF DAIRY SCIENCE, vol. 83 (Suppl. 1), pp. 61.CHARACTERIZATION OF A NORMALIZED CDNA LIBRARY CONSTRUCTED FROM BOVINE MAMMARY GLAND TISSUES

- (Abstract Only)Sonstegard, T.S., Capuco, A.V., Van Tassell, C.P., Wells, K.D., Ashwell, M.S. 2000. Characterization of a normalized cdna library constructed from bovine mammary gland tissues [abstract]. Animal Genetics International Conference Proceedings.DETECTION OF QTL AFFECTING MILK PRODUCTION IN 6 DAIRY BULL DNA REPOSITORY GRANDSIRE FAMILIES.

- (Abstract Only)Ashwell, M.S., Heyen, D.W., Da, Y., Sonstegard, T.S., Van Tassell, C.P., Lewin, H.A. 2000. Detection of qtl affecting milk production in 6 dairy bull dna repository grandsire families.. Animal Genetics International Conference Proceedings.DAIRY CATTLE GENOMICS:TOOLS TO ACCELERATE GENETIC IMPROVEMENT

- (Abstract Only)Sonstegard, T.S., Van Tassell, C.P., Ashwell, M.S. 2000. Dairy cattle genomics:tools to accelerate genetic improvement [abstract]. Joint Abstracts of the American Dairy Science and Society of Animal Science.COMPARATIVE MAP ALIGNMENT OF BTA27 AND HSA4 AND 8 TO IDENTIFY CONSERVED SEGMENTS OF GENOME CONTAINING FAT DEPOSITION QTL.

- (Peer Reviewed Journal)Sonstegard, T.S., Garrett, W.M., Ashwell, M.S., Bennett, G.L., Kappes, S.M., Van Tassell, C.P. 2000. Comparative map alignment of bta27 and hsa4 and 8 to identify conserved segments of genome containing fat deposition qtl. Mammalian Genome. 11(8):682-688.METHOD R ESTIMATES OF ADDITIVE GENETIC, DOMINANCE GENETIC, AND PERMANENT   ENVIRONMENTAL FRACTION OF VARIANCES FOR YIELD AND HEALTH TRAITS OF         HOLSTEINS

- (Peer Reviewed Journal)Van Tassell, C.P., Misztal, I., Varona, L. 2000. Method r estimates of additive genetic, dominance genetic, and permanent environmental fraction of variances for yield and health traits of holsteins. Journal of Dairy Science. vol. 83, pp. 1873-77.DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND CONFORMATION TRAITS IN A U.S. HOLSTEIN POPULATION USING 105 MICROSATELLITE MARKERS.

- (Abstract Only)Van Tassell, C.P., Ashwell, M.S., Sonstegard, T.S. 2000. Detection of putative loci affecting milk, health, and conformation traits in a u.s. holstein population using 105 microsatellite markers [abstract]. Plant and Animal Genome VIII. Paper No. 364.DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND CONFORMATION TRAITS IN A U.S. HOLSTEIN POPULATION USING 105 MICROSATELLITE MARKERS

- (Peer Reviewed Journal)Van Tassell, C.P., Ashwell, M.S., Sonstegard, T.S. 2000. Detection of putative loci affecting milk, health, and conformation traits in a u.s. holstein population using 105 microsatellite markers. Journal of Dairy Science. 83(8):1865-1872.TOWARDS MARKER ASSISTED SELECTION IN DAIRY CATTLE: HIGH-THROUGHPUT GENOTYPING ON THE ABI-3700

- (Abstract Only)Sonstegard, T.S., Ashwell, M.S., Van Tassell, C.P. 1999. Towards marker assisted selection in dairy cattle: high-throughput genotyping on the abi-3700 [abstract].VERIFICATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN TWO FAMILIES  OF HOLSTEINS.

- (Abstract Only)USE OF THE WORLD WIDE WEB TO DISTRIBUTE GENETIC EVALUATION INFORMATION

- (Abstract Only)DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, TYPE AND CANONICALLY    TRANSFORMED TRAITS IN A US HOLSTEIN POPULATION USING 31 ADDITIONAL         MICROSATELLITE MARKERS

- (Abstract Only)THE COOPERATIVE DAIRY DNA REPOSITORY-A NEW RESOURCE FOR QUANTITATIVE TRAIT LOCI DETECTION AND VERIFICATION.

- (Abstract Only)DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND TYPE TRAITS IN A    US HOLSTEIN POPULATION USING 34 MICROSATELLITE MARKERS.

- (Peer Reviewed Journal)INTERVAL ANALYSES TO IDENTIFY QTL FOR DAIRY FORM IN TWO FAMILIES OF HOLSTEINS

- (Abstract Only)METHOD R ESTIMATES OF HERITABILITY FOR MILK, FAT, AND PROTEIN YIELDS OF US DAIRY CATTLE

- (Peer Reviewed Journal)DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND TYPE TRAITS IN A    US HOLSTEIN POPULATION USING 20 MICROSATELLITE MARKERS

- (Proceedings)INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS AFFECTING MILK COMPOSITION ON  BTA6 IN ONE FAMILY OF HOLSTEINS.

- (Abstract Only)INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS AFFECTING MILK COMPOSITION ON  BTA6 IN ONE FAMILY OF HOLSTEINS

- (Proceedings)CHANGES IN USDA-DHIA GENETIC EVALUATIONS (FEBRUARY 1999)

- (Government Publication)INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS AFFECTING MILK COMPOSITION ON  BTA6 IN ONE FAMILY OF HOLSTEINS.

- (Abstract Only)DETECTION OF PUTATIVE LOCI AFFECTING MILK, HEALTH, AND TYPE TRAITS IN A    U.S. HOLSTEIN POPULATION USING 20 MICROSATELLITE MARKERS.

- (Abstract Only)INDICES DE MAXIMO BENEFICIO ECONOMICO PARA LA SELECCION DE SEMENTALES      HOLSTEIN EN MEXICO (MAXIMUM PROFIT INDICES FOR HOLSTEIN SIRE SELECTION     IN MEXICO)

- (Peer Reviewed Journal)CIRCULATING CONCENTRATIONS OF ESTRADIOL, LUTEINIZING HORMONE, AND FOLLICLE-STIMULATING HORMONE DURING WAVES OF OVARIAN FOLLICULAR DEVELOPMENT IN      PREPUBERTAL CATTLE

- (Peer Reviewed Journal)USE OF (CO)VARIANCE FUNCTIONS TO DESCRIBE (CO)VARIANCES FOR TEST DAY YIELD

- (Peer Reviewed Journal)INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN ONE FAMILY   OF HOLSTEINS.

- (Abstract Only)INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN ONE FAMILY OFHOLSTEINS

- (Abstract Only)STUDIES ON THE VALUE OF INCORPORATING THE EFFECT OF DOMINANCE IN GENETIC   EVALUATIONS OF DAIRY CATTLE, BEEF CATTLE, AND SWINE

- (Peer Reviewed Journal)INVESTIGATION OF A QUANTITATIVE TRAIT LOCUS FOR DAIRY FORM IN ONE FAMILY OFHOLSTEINS

- (Abstract Only)BAYESIAN ANALYSIS OF TWINNING AND OVULATION RATES USING A MULTIPLE-TRAIT   THRESHOLD MODEL AND GIBBS SAMPLING

- (Peer Reviewed Journal)STUDIES ON THE VALUE OF INCORPORATING EFFECT OF DOMINANCE IN GENETIC       EVALUATIONS OF DAIRY CATTLE, BEEF CATTLE, AND SWINE

- (Proceedings)ESTIMATION OF HERITABILITY FOR YIELD OF U.S. DAIRY CATTLE

- (Proceedings)ECONOMIC RESPONSE AND RISK FROM USE OF SELECTED HOLSTEIN SIRES IN ITALY,   MEXICO, THE NETHERLANDS AND USA

- (Proceedings)CHANGES IN USDA-DHIA GENETIC EVALUATIONS (AUGUST 1997)

- (Government Publication)COLLECTION AND MANAGEMENT OF TEST DAY DATA IN THE UNITED STATES

- (Abstract Only)METHOD R ESTIMATES OF HERITABILITY FOR MILK, FAT, AND PROTEIN YIELDS FROM  FIRST LACTATIONS OF DAIRY CATTLE

- (Abstract Only)MULTITRAIT PARAMETER ESTIMATION FOR THE NATIONAL DAIRY CATTLE POPULATION   USING LARGE DATA SETS

- (Proceedings)BAYESIAN ANALYSIS OF TWINNING AND OVULATION RATE USING A MULTIPLE TRAIT    THRESHOLD MODEL AND GIBBS SAMPLING

- (Abstract Only)PARAMETER ESTIMATES OBTAINED USING GIBBS SAMPLING FOR GROWTH TRAITS AND    MUSCLE SCORE IN HEREFORD CATTLE SELECTED FOR WEANING WEIGHT, YEARLING      WEIGHT, OR AN INDEX OF YEARLING WEIGHT AND MUSCLE SCORE

- (Abstract Only)MULTIPLE TRAIT GIBBS SAMPLER FOR ANIMAL MODELS:  GENERAL PROGRAMS FOR      BAYESIAN AND MARGINAL LIKELIHOOD BASED VARIANCE COMPONENT ESTIMATION

- (Peer Reviewed Journal)PARAMETER ESTIMATES OBTAINED USING GIBBS SAMPLING FOR 4 TRAITS IN HEREFORD CATTLE SELECTED FOR YEARLING WEIGHT

- (Abstract Only)BAYESIAN AND LIKELIHOOD INFERENCE USING MTGSAM:MULTIPLE TRAIT GIBBS        SAMPLER FOR ANIMAL MODELS

- (Proceedings)
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