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The Sequence Alignment/Map format and SAMtools.
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup. Li H, et al. Among authors: ruan j. Bioinformatics. 2009 Aug 15;25(16):2078-9. doi: 10.1093/bioinformatics/btp352. Epub 2009 Jun 8. Bioinformatics. 2009. PMID: 19505943 Free PMC article.
TreeFam: a curated database of phylogenetic trees of animal gene families.
Li H, Coghlan A, Ruan J, Coin LJ, Hériché JK, Osmotherly L, Li R, Liu T, Zhang Z, Bolund L, Wong GK, Zheng W, Dehal P, Wang J, Durbin R. Li H, et al. Among authors: ruan j. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D572-80. doi: 10.1093/nar/gkj118. Nucleic Acids Res. 2006. PMID: 16381935 Free PMC article.
The diploid genome sequence of an Asian individual.
Wang J, Wang W, Li R, Li Y, Tian G, Goodman L, Fan W, Zhang J, Li J, Zhang J, Guo Y, Feng B, Li H, Lu Y, Fang X, Liang H, Du Z, Li D, Zhao Y, Hu Y, Yang Z, Zheng H, Hellmann I, Inouye M, Pool J, Yi X, Zhao J, Duan J, Zhou Y, Qin J, Ma L, Li G, Yang Z, Zhang G, Yang B, Yu C, Liang F, Li W, Li S, Li D, Ni P, Ruan J, Li Q, Zhu H, Liu D, Lu Z, Li N, Guo G, Zhang J, Ye J, Fang L, Hao Q, Chen Q, Liang Y, Su Y, San A, Ping C, Yang S, Chen F, Li L, Zhou K, Zheng H, Ren Y, Yang L, Gao Y, Yang G, Li Z, Feng X, Kristiansen K, Wong GK, Nielsen R, Durbin R, Bolund L, Zhang X, Li S, Yang H, Wang J. Wang J, et al. Among authors: ruan j. Nature. 2008 Nov 6;456(7218):60-5. doi: 10.1038/nature07484. Nature. 2008. PMID: 18987735 Free PMC article.
Fast and accurate long-read assembly with wtdbg2.
Ruan J, Li H. Ruan J, et al. Nat Methods. 2020 Feb;17(2):155-158. doi: 10.1038/s41592-019-0669-3. Epub 2019 Dec 9. Nat Methods. 2020. PMID: 31819265 Free PMC article.
BSAlign: A Library for Nucleotide Sequence Alignment.
Shao H, Ruan J. Shao H, et al. Among authors: ruan j. Genomics Proteomics Bioinformatics. 2024 Jul 3;22(2):qzae025. doi: 10.1093/gpbjnl/qzae025. Genomics Proteomics Bioinformatics. 2024. PMID: 39209796 Free article.
PigGIS: Pig Genomic Informatics System.
Ruan J, Guo Y, Li H, Hu Y, Song F, Huang X, Kristiensen K, Bolund L, Wang J. Ruan J, et al. Nucleic Acids Res. 2007 Jan;35(Database issue):D654-7. doi: 10.1093/nar/gkl808. Epub 2006 Nov 7. Nucleic Acids Res. 2007. PMID: 17090590 Free PMC article.
TreeFam: 2008 Update.
Ruan J, Li H, Chen Z, Coghlan A, Coin LJ, Guo Y, Hériché JK, Hu Y, Kristiansen K, Li R, Liu T, Moses A, Qin J, Vang S, Vilella AJ, Ureta-Vidal A, Bolund L, Wang J, Durbin R. Ruan J, et al. Nucleic Acids Res. 2008 Jan;36(Database issue):D735-40. doi: 10.1093/nar/gkm1005. Epub 2007 Dec 1. Nucleic Acids Res. 2008. PMID: 18056084 Free PMC article.
2,445 results