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Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C.
Kronenberg ZN, Rhie A, Koren S, Concepcion GT, Peluso P, Munson KM, Porubsky D, Kuhn K, Mueller KA, Low WY, Hiendleder S, Fedrigo O, Liachko I, Hall RJ, Phillippy AM, Eichler EE, Williams JL, Smith TPL, Jarvis ED, Sullivan ST, Kingan SB. Kronenberg ZN, et al. Among authors: williams jl. Nat Commun. 2021 Apr 28;12(1):1935. doi: 10.1038/s41467-020-20536-y. Nat Commun. 2021. PMID: 33911078 Free PMC article.
A physical map of the bovine genome.
Snelling WM, Chiu R, Schein JE, Hobbs M, Abbey CA, Adelson DL, Aerts J, Bennett GL, Bosdet IE, Boussaha M, Brauning R, Caetano AR, Costa MM, Crawford AM, Dalrymple BP, Eggen A, Everts-van der Wind A, Floriot S, Gautier M, Gill CA, Green RD, Holt R, Jann O, Jones SJ, Kappes SM, Keele JW, de Jong PJ, Larkin DM, Lewin HA, McEwan JC, McKay S, Marra MA, Mathewson CA, Matukumalli LK, Moore SS, Murdoch B, Nicholas FW, Osoegawa K, Roy A, Salih H, Schibler L, Schnabel RD, Silveri L, Skow LC, Smith TP, Sonstegard TS, Taylor JF, Tellam R, Van Tassell CP, Williams JL, Womack JE, Wye NH, Yang G, Zhao S; International Bovine BAC Mapping Consortium. Snelling WM, et al. Among authors: williams jl. Genome Biol. 2007;8(8):R165. doi: 10.1186/gb-2007-8-8-r165. Genome Biol. 2007. PMID: 17697342 Free PMC article.
Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50).
Williams JL, Iamartino D, Pruitt KD, Sonstegard T, Smith TPL, Low WY, Biagini T, Bomba L, Capomaccio S, Castiglioni B, Coletta A, Corrado F, Ferré F, Iannuzzi L, Lawley C, Macciotta N, McClure M, Mancini G, Matassino D, Mazza R, Milanesi M, Moioli B, Morandi N, Ramunno L, Peretti V, Pilla F, Ramelli P, Schroeder S, Strozzi F, Thibaud-Nissen F, Zicarelli L, Ajmone-Marsan P, Valentini A, Chillemi G, Zimin A. Williams JL, et al. Gigascience. 2017 Oct 1;6(10):1-6. doi: 10.1093/gigascience/gix088. Gigascience. 2017. PMID: 29048578 Free PMC article.
De novo assembly of haplotype-resolved genomes with trio binning.
Koren S, Rhie A, Walenz BP, Dilthey AT, Bickhart DM, Kingan SB, Hiendleder S, Williams JL, Smith TPL, Phillippy AM. Koren S, et al. Among authors: williams jl. Nat Biotechnol. 2018 Oct 22:10.1038/nbt.4277. doi: 10.1038/nbt.4277. Online ahead of print. Nat Biotechnol. 2018. PMID: 30346939 Free PMC article.
Computational detection and experimental validation of segmental duplications and associated copy number variations in water buffalo ( Bubalus bubalis ).
Liu S, Kang X, Catacchio CR, Liu M, Fang L, Schroeder SG, Li W, Rosen BD, Iamartino D, Iannuzzi L, Sonstegard TS, Van Tassell CP, Ventura M, Low WY, Williams JL, Bickhart DM, Liu GE. Liu S, et al. Among authors: williams jl. Funct Integr Genomics. 2019 May;19(3):409-419. doi: 10.1007/s10142-019-00657-4. Epub 2019 Feb 7. Funct Integr Genomics. 2019. PMID: 30734132
Haplotype-resolved genomes provide insights into structural variation and gene content in Angus and Brahman cattle.
Low WY, Tearle R, Liu R, Koren S, Rhie A, Bickhart DM, Rosen BD, Kronenberg ZN, Kingan SB, Tseng E, Thibaud-Nissen F, Martin FJ, Billis K, Ghurye J, Hastie AR, Lee J, Pang AWC, Heaton MP, Phillippy AM, Hiendleder S, Smith TPL, Williams JL. Low WY, et al. Among authors: williams jl. Nat Commun. 2020 Apr 29;11(1):2071. doi: 10.1038/s41467-020-15848-y. Nat Commun. 2020. PMID: 32350247 Free PMC article.
Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication.
Dutta P, Talenti A, Young R, Jayaraman S, Callaby R, Jadhav SK, Dhanikachalam V, Manikandan M, Biswa BB, Low WY, Williams JL, Cook E, Toye P, Wall E, Djikeng A, Marshall K, Archibald AL, Gokhale S, Kumar S, Hume DA, Prendergast JGD. Dutta P, et al. Among authors: williams jl. Nat Commun. 2020 Sep 21;11(1):4739. doi: 10.1038/s41467-020-18550-1. Nat Commun. 2020. PMID: 32958756 Free PMC article.
1,135 results