國家衛生研究院 NHRI:Item 3990099045/10814
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    題名: Critical assessment of metagenome interpretation-A benchmark of metagenomics software
    作者: Sczyrba, A;Hofmann, P;Belmann, P;Koslicki, D;Janssen, S;Droge, J;Gregor, I;Majda, S;Fiedler, J;Dahms, E;Bremges, A;Fritz, A;Garrido-Oter, R;Jorgensen, TS;Shapiro, N;Blood, PD;Gurevich, A;Bai, Y;Turaev, D;DeMaere, MZ;Chikhi, R;Nagarajan, N;Quince, C;Meyer, F;Balvociute, M;Hansen, LH;Sorensen, SJ;Chia, BKH;Denis, B;Froula, JL;Wang, Z;Egan, R;Don Kang, D;Cook, JJ;Deltel, C;Beckstette, M;Lemaitre, C;Peterlongo, P;Rizk, G;Lavenier, D;Wu, YW;Singer, SW;Jain, C;Strous, M;Klingenberg, H;Meinicke, P;Barton, MD;Lingner, T;Lin, HH;Liao, YC;Silva, GGZ;Cuevas, DA;Edwards, RA;Saha, S;Piro, VC;Renard, BY;Pop, M;Klenk, HP;Goker, M;Kyrpides, NC;Woyke, T;Vorholt, JA;Schulze-Lefert, P;Rubin, EM;Darling, AE;Rattei, T;McHardy, AC
    貢獻者: Institute of Population Health Sciences
    摘要: Methods for assembly, taxonomic profiling and binning are key to interpreting metagenome data, but a lack of consensus about benchmarking complicates performance assessment. The Critical Assessment of Metagenome Interpretation (CAMI) challenge has engaged the global developer community to benchmark their programs on highly complex and realistic data sets, generated from approximately 700 newly sequenced microorganisms and approximately 600 novel viruses and plasmids and representing common experimental setups. Assembly and genome binning programs performed well for species represented by individual genomes but were substantially affected by the presence of related strains. Taxonomic profiling and binning programs were proficient at high taxonomic ranks, with a notable performance decrease below family level. Parameter settings markedly affected performance, underscoring their importance for program reproducibility. The CAMI results highlight current challenges but also provide a roadmap for software selection to answer specific research questions.
    日期: 2017-10-02
    關聯: Nature Methods. 2017 Oct 02;14(11):1063-1071.
    Link to: http://dx.doi.org/10.1038/nmeth.4458
    JIF/Ranking 2023: http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=1548-7091&DestApp=IC2JCR
    Cited Times(WOS): https://www.webofscience.com/wos/woscc/full-record/WOS:000414120400018
    Cited Times(Scopus): https://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=85030454987
    顯示於類別:[廖玉潔] 期刊論文

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