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Gaps and complex structurally variant loci in phased genome assemblies.
Porubsky D, Vollger MR, Harvey WT, Rozanski AN, Ebert P, Hickey G, Hasenfeld P, Sanders AD, Stober C; Human Pangenome Reference Consortium; Korbel JO, Paten B, Marschall T, Eichler EE. Porubsky D, et al. Genome Res. 2023 Apr;33(4):496-510. doi: 10.1101/gr.277334.122. Epub 2023 May 10. Genome Res. 2023. PMID: 37164484 Free PMC article.
FX: an RNA-Seq analysis tool on the cloud.
Hong D, Rhie A, Park SS, Lee J, Ju YS, Kim S, Yu SB, Bleazard T, Park HS, Rhee H, Chong H, Yang KS, Lee YS, Kim IH, Lee JS, Kim JI, Seo JS. Hong D, et al. Among authors: rhie a. Bioinformatics. 2012 Mar 1;28(5):721-3. doi: 10.1093/bioinformatics/bts023. Epub 2012 Jan 17. Bioinformatics. 2012. PMID: 22257667
De novo assembly and phasing of a Korean human genome.
Seo JS, Rhie A, Kim J, Lee S, Sohn MH, Kim CU, Hastie A, Cao H, Yun JY, Kim J, Kuk J, Park GH, Kim J, Ryu H, Kim J, Roh M, Baek J, Hunkapiller MW, Korlach J, Shin JY, Kim C. Seo JS, et al. Among authors: rhie a. Nature. 2016 Oct 13;538(7624):243-247. doi: 10.1038/nature20098. Epub 2016 Oct 5. Nature. 2016. PMID: 27706134
The First Kazakh Whole Genomes: The First Report of NGS Data.
Akilzhanova A, Kairov U, Rakhimova S, Molkenov A, Rhie A, Kim JI, Seo JS, Zhumadilov Z. Akilzhanova A, et al. Among authors: rhie a. Cent Asian J Glob Health. 2014 Dec 12;3(Suppl):146. doi: 10.5195/cajgh.2014.146. eCollection 2014. Cent Asian J Glob Health. 2014. PMID: 29805883 Free PMC article.
Whole-Genome Sequencing and Genomic Variant Analysis of Kazakh Individuals.
Kairov U, Molkenov A, Sharip A, Rakhimova S, Seidualy M, Rhie A, Kozhamkulov U, Zhabagin M, Kim JI, Lee JH, Terwilliger JD, Seo JS, Zhumadilov Z, Akilzhanova A. Kairov U, et al. Among authors: rhie a. Front Genet. 2022 Jul 11;13:902804. doi: 10.3389/fgene.2022.902804. eCollection 2022. Front Genet. 2022. PMID: 35899193 Free PMC article.
Integrating Hi-C links with assembly graphs for chromosome-scale assembly.
Ghurye J, Rhie A, Walenz BP, Schmitt A, Selvaraj S, Pop M, Phillippy AM, Koren S. Ghurye J, et al. Among authors: rhie a. PLoS Comput Biol. 2019 Aug 21;15(8):e1007273. doi: 10.1371/journal.pcbi.1007273. eCollection 2019 Aug. PLoS Comput Biol. 2019. PMID: 31433799 Free PMC article.
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: rhie a. Nat Commun. 2020 Apr 29;11(1):2071. doi: 10.1038/s41467-020-15848-y. Nat Commun. 2020. PMID: 32350247 Free PMC article.
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: rhie a. Nat Commun. 2021 Apr 28;12(1):1935. doi: 10.1038/s41467-020-20536-y. Nat Commun. 2021. PMID: 33911078 Free PMC article.
71 results