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Comparison of the two major classes of assembly algorithms: overlap-layout-consensus and de-bruijn-graph.
Brief Funct Genomics. 2012 Jan;11(1):25-37. doi: 10.1093/bfgp/elr035. Epub 2011 Dec 19.
Brief Funct Genomics. 2012.
PMID: 22184334
Review.
pIRS: Profile-based Illumina pair-end reads simulator.
Hu X, Yuan J, Shi Y, Lu J, Liu B, Li Z, Chen Y, Mu D, Zhang H, Li N, Yue Z, Bai F, Li H, Fan W.
Hu X, et al. Among authors: mu d.
Bioinformatics. 2012 Jun 1;28(11):1533-5. doi: 10.1093/bioinformatics/bts187. Epub 2012 Apr 15.
Bioinformatics. 2012.
PMID: 22508794
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The nearly complete genome of Ginkgo biloba illuminates gymnosperm evolution.
Liu H, Wang X, Wang G, Cui P, Wu S, Ai C, Hu N, Li A, He B, Shao X, Wu Z, Feng H, Chang Y, Mu D, Hou J, Dai X, Yin T, Ruan J, Cao F.
Liu H, et al. Among authors: mu d.
Nat Plants. 2021 Jun;7(6):748-756. doi: 10.1038/s41477-021-00933-x. Epub 2021 Jun 14.
Nat Plants. 2021.
PMID: 34135482
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The genome of the mesopolyploid crop species Brassica rapa.
Wang X, Wang H, Wang J, Sun R, Wu J, Liu S, Bai Y, Mun JH, Bancroft I, Cheng F, Huang S, Li X, Hua W, Wang J, Wang X, Freeling M, Pires JC, Paterson AH, Chalhoub B, Wang B, Hayward A, Sharpe AG, Park BS, Weisshaar B, Liu B, Li B, Liu B, Tong C, Song C, Duran C, Peng C, Geng C, Koh C, Lin C, Edwards D, Mu D, Shen D, Soumpourou E, Li F, Fraser F, Conant G, Lassalle G, King GJ, Bonnema G, Tang H, Wang H, Belcram H, Zhou H, Hirakawa H, Abe H, Guo H, Wang H, Jin H, Parkin IA, Batley J, Kim JS, Just J, Li J, Xu J, Deng J, Kim JA, Li J, Yu J, Meng J, Wang J, Min J, Poulain J, Wang J, Hatakeyama K, Wu K, Wang L, Fang L, Trick M, Links MG, Zhao M, Jin M, Ramchiary N, Drou N, Berkman PJ, Cai Q, Huang Q, Li R, Tabata S, Cheng S, Zhang S, Zhang S, Huang S, Sato S, Sun S, Kwon SJ, Choi SR, Lee TH, Fan W, Zhao X, Tan X, Xu X, Wang Y, Qiu Y, Yin Y, Li Y, Du Y, Liao Y, Lim Y, Narusaka Y, Wang Y, Wang Z, Li Z, Wang Z, Xiong Z, Zhang Z; Brassica rapa Genome Sequencing Project Consortium.
Wang X, et al. Among authors: mu d.
Nat Genet. 2011 Aug 28;43(10):1035-9. doi: 10.1038/ng.919.
Nat Genet. 2011.
PMID: 21873998
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Genome sequence and analysis of the tuber crop potato.
Potato Genome Sequencing Consortium; Xu X, Pan S, Cheng S, Zhang B, Mu D, Ni P, Zhang G, Yang S, Li R, Wang J, Orjeda G, Guzman F, Torres M, Lozano R, Ponce O, Martinez D, De la Cruz G, Chakrabarti SK, Patil VU, Skryabin KG, Kuznetsov BB, Ravin NV, Kolganova TV, Beletsky AV, Mardanov AV, Di Genova A, Bolser DM, Martin DM, Li G, Yang Y, Kuang H, Hu Q, Xiong X, Bishop GJ, Sagredo B, Mejía N, Zagorski W, Gromadka R, Gawor J, Szczesny P, Huang S, Zhang Z, Liang C, He J, Li Y, He Y, Xu J, Zhang Y, Xie B, Du Y, Qu D, Bonierbale M, Ghislain M, Herrera Mdel R, Giuliano G, Pietrella M, Perrotta G, Facella P, O'Brien K, Feingold SE, Barreiro LE, Massa GA, Diambra L, Whitty BR, Vaillancourt B, Lin H, Massa AN, Geoffroy M, Lundback S, DellaPenna D, Buell CR, Sharma SK, Marshall DF, Waugh R, Bryan GJ, Destefanis M, Nagy I, Milbourne D, Thomson SJ, Fiers M, Jacobs JM, Nielsen KL, Sønderkær M, Iovene M, Torres GA, Jiang J, Veilleux RE, Bachem CW, de Boer J, Borm T, Kloosterman B, van Eck H, Datema E, Hekkert Bt, Goverse A, van Ham RC, Visser RG.
Potato Genome Sequencing Consortium, et al. Among authors: mu d.
Nature. 2011 Jul 10;475(7355):189-95. doi: 10.1038/nature10158.
Nature. 2011.
PMID: 21743474
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Exogenous Melatonin Delays Dark-Induced Grape Leaf Senescence by Regulation of Antioxidant System and Senescence Associated Genes (SAGs).
Shi X, Xu S, Mu D, Sadeghnezhad E, Li Q, Ma Z, Zhao L, Zhang Q, Wang L.
Shi X, et al. Among authors: mu d.
Plants (Basel). 2019 Sep 23;8(10):366. doi: 10.3390/plants8100366.
Plants (Basel). 2019.
PMID: 31547618
Free PMC article.
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Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus.
Lin K, Limpens E, Zhang Z, Ivanov S, Saunders DG, Mu D, Pang E, Cao H, Cha H, Lin T, Zhou Q, Shang Y, Li Y, Sharma T, van Velzen R, de Ruijter N, Aanen DK, Win J, Kamoun S, Bisseling T, Geurts R, Huang S.
Lin K, et al. Among authors: mu d.
PLoS Genet. 2014 Jan;10(1):e1004078. doi: 10.1371/journal.pgen.1004078. Epub 2014 Jan 9.
PLoS Genet. 2014.
PMID: 24415955
Free PMC article.
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