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Phased-assembly-driven pangenome graphs for structural variant genotyping and complex trait mapping in dairy cattle.

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Title: Phased-assembly-driven pangenome graphs for structural variant genotyping and complex trait mapping in dairy cattle.
Authors: Yang L; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.; Department of Animal and Avian Sciences, University of Maryland, College Park, MD, USA., Gao Y; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.; Department of Animal and Avian Sciences, University of Maryland, College Park, MD, USA., Kuhn KL; USDA, ARS, U.S. Meat Animal Research Center (USMARC), Clay Center, NE, USA., Bhowmik N; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA., Li W; US Dairy Forage Research Center, USDA-ARS, Madison, WI, USA., Zanton G; US Dairy Forage Research Center, USDA-ARS, Madison, WI, USA., Fang L; Quantitative Genetics and Genomics (QGG), Aarhus University, Aarhus, Denmark., Cole JB; Council on Dairy Cattle Breeding, 4201 Northview Dr, Bowie, MD, USA.; Department of Animal Sciences, Donald Henry Barron Reproductive and Perinatal Biology Research Program, and the Genetics Institute, University of Florida, Gainesville, FL, USA.; Department of Animal Science, North Carolina State University, Raleigh, NC, USA.; Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada., Li C; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA., Baldwin Vi RL; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA., Van Tassell CP; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA., Rosen BD; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA., Ma L; Department of Animal and Avian Sciences, University of Maryland, College Park, MD, USA., Smith TPL; US Dairy Forage Research Center, USDA-ARS, Madison, WI, USA. tplsmith@gmail.com., Liu GE; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA. George.Liu@usda.gov.
Source: Nature communications [Nat Commun] 2026 Jan 30; Vol. 17 (1). Date of Electronic Publication: 2026 Jan 30.
Publication Type: Journal Article
Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: Phased-assembly-driven pangenome graphs for structural variant genotyping and complex trait mapping in dairy cattle.
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  Data: <searchLink fieldCode="AU" term="%22Yang+L%22">Yang L</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.; Department of Animal and Avian Sciences, University of Maryland, College Park, MD, USA.<br /><searchLink fieldCode="AU" term="%22Gao+Y%22">Gao Y</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.; Department of Animal and Avian Sciences, University of Maryland, College Park, MD, USA.<br /><searchLink fieldCode="AU" term="%22Kuhn+KL%22">Kuhn KL</searchLink>; USDA, ARS, U.S. Meat Animal Research Center (USMARC), Clay Center, NE, USA.<br /><searchLink fieldCode="AU" term="%22Bhowmik+N%22">Bhowmik N</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Li+W%22">Li W</searchLink>; US Dairy Forage Research Center, USDA-ARS, Madison, WI, USA.<br /><searchLink fieldCode="AU" term="%22Zanton+G%22">Zanton G</searchLink>; US Dairy Forage Research Center, USDA-ARS, Madison, WI, USA.<br /><searchLink fieldCode="AU" term="%22Fang+L%22">Fang L</searchLink>; Quantitative Genetics and Genomics (QGG), Aarhus University, Aarhus, Denmark.<br /><searchLink fieldCode="AU" term="%22Cole+JB%22">Cole JB</searchLink>; Council on Dairy Cattle Breeding, 4201 Northview Dr, Bowie, MD, USA.; Department of Animal Sciences, Donald Henry Barron Reproductive and Perinatal Biology Research Program, and the Genetics Institute, University of Florida, Gainesville, FL, USA.; Department of Animal Science, North Carolina State University, Raleigh, NC, USA.; Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, Canada.<br /><searchLink fieldCode="AU" term="%22Li+C%22">Li C</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Baldwin+Vi+RL%22">Baldwin Vi RL</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Van+Tassell+CP%22">Van Tassell CP</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Rosen+BD%22">Rosen BD</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA.<br /><searchLink fieldCode="AU" term="%22Ma+L%22">Ma L</searchLink>; Department of Animal and Avian Sciences, University of Maryland, College Park, MD, USA.<br /><searchLink fieldCode="AU" term="%22Smith+TPL%22">Smith TPL</searchLink>; US Dairy Forage Research Center, USDA-ARS, Madison, WI, USA. tplsmith@gmail.com.<br /><searchLink fieldCode="AU" term="%22Liu+GE%22">Liu GE</searchLink>; Animal Genomics and Improvement Laboratory, Beltsville Agricultural Research Center, Agricultural Research Service, United States Department of Agriculture, Beltsville, MD, USA. George.Liu@usda.gov.
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