메뉴 건너뛰기




Volumn 10, Issue 7, 2014, Pages

Metagenomic Data Utilization and Analysis (MEDUSA) and Construction of a Global Gut Microbial Gene Catalogue

Author keywords

[No Author keywords available]

Indexed keywords

BIOTECHNOLOGY;

EID: 84905454882     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1003706     Document Type: Article
Times cited : (54)

References (28)
  • 1
    • 84862276328 scopus 로고    scopus 로고
    • Structure, function and diversity of the healthy human microbiome
    • The Human Microbiome Project Consortium
    • The Human Microbiome Project Consortium (2012) Structure, function and diversity of the healthy human microbiome. Nature 486: 207-214.
    • (2012) Nature , vol.486 , pp. 207-214
  • 2
    • 77950251400 scopus 로고    scopus 로고
    • A human gut microbial gene catalogue established by metagenomic sequencing
    • Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, et al. (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464: 59-65.
    • (2010) Nature , vol.464 , pp. 59-65
    • Qin, J.1    Li, R.2    Raes, J.3    Arumugam, M.4    Burgdorf, K.S.5
  • 3
    • 84878709716 scopus 로고    scopus 로고
    • Gut metagenome in European women with normal, impaired and diabetic glucose control
    • Karlsson FH, Tremaroli V, Nookaew I, Bergstrom G, Behre CJ, et al. (2013) Gut metagenome in European women with normal, impaired and diabetic glucose control. Nature 498: 99-103.
    • (2013) Nature , vol.498 , pp. 99-103
    • Karlsson, F.H.1    Tremaroli, V.2    Nookaew, I.3    Bergstrom, G.4    Behre, C.J.5
  • 4
    • 84867074831 scopus 로고    scopus 로고
    • A metagenome-wide association study of gut microbiota in type 2 diabetes
    • Qin J, Li Y, Cai Z, Li S, Zhu J, et al. (2012) A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature 490: 55-60.
    • (2012) Nature , vol.490 , pp. 55-60
    • Qin, J.1    Li, Y.2    Cai, Z.3    Li, S.4    Zhu, J.5
  • 5
    • 84871814687 scopus 로고    scopus 로고
    • Symptomatic atherosclerosis is associated with an altered gut metagenome
    • Karlsson FH, Fak F, Nookaew I, Tremaroli V, Fagerberg B, et al. (2012) Symptomatic atherosclerosis is associated with an altered gut metagenome. Nat Commun 3: 1245.
    • (2012) Nat Commun , vol.3 , pp. 1245
    • Karlsson, F.H.1    Fak, F.2    Nookaew, I.3    Tremaroli, V.4    Fagerberg, B.5
  • 6
    • 84883110880 scopus 로고    scopus 로고
    • Richness of human gut microbiome correlates with metabolic markers
    • Le Chatelier E, Nielsen T, Qin J, Prifti E, Hildebrand F, et al. (2013) Richness of human gut microbiome correlates with metabolic markers. Nature 500: 541-546.
    • (2013) Nature , vol.500 , pp. 541-546
    • Le Chatelier, E.1    Nielsen, T.2    Qin, J.3    Prifti, E.4    Hildebrand, F.5
  • 7
    • 75649124547 scopus 로고    scopus 로고
    • De novo assembly of human genomes with massively parallel short read sequencing
    • Li R, Zhu H, Ruan J, Qian W, Fang X, et al. (2010) De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 20: 265-272.
    • (2010) Genome Res , vol.20 , pp. 265-272
    • Li, R.1    Zhu, H.2    Ruan, J.3    Qian, W.4    Fang, X.5
  • 8
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: algorithms for de novo short read assembly using de Bruijn graphs
    • Zerbino DR, Birney E, (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18: 821-829.
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 9
    • 84867634981 scopus 로고    scopus 로고
    • MOCAT: a metagenomics assembly and gene prediction toolkit
    • Kultima JR, Sunagawa S, Li J, Chen W, Chen H, et al. (2012) MOCAT: a metagenomics assembly and gene prediction toolkit. PLoS One 7: e47656.
    • (2012) PLoS One , vol.7
    • Kultima, J.R.1    Sunagawa, S.2    Li, J.3    Chen, W.4    Chen, H.5
  • 10
    • 79952124952 scopus 로고    scopus 로고
    • Taxonomic metagenome sequence assignment with structured output models
    • Patil KR, Haider P, Pope PB, Turnbaugh PJ, Morrison M, et al. (2011) Taxonomic metagenome sequence assignment with structured output models. Nat Methods 8: 191-192.
    • (2011) Nat Methods , vol.8 , pp. 191-192
    • Patil, K.R.1    Haider, P.2    Pope, P.B.3    Turnbaugh, P.J.4    Morrison, M.5
  • 11
    • 79955611184 scopus 로고    scopus 로고
    • PhymmBL expanded: confidence scores, custom databases, parallelization and more
    • Brady A, Salzberg S, (2011) PhymmBL expanded: confidence scores, custom databases, parallelization and more. Nat Methods 8: 367.
    • (2011) Nat Methods , vol.8 , pp. 367
    • Brady, A.1    Salzberg, S.2
  • 12
    • 84864440400 scopus 로고    scopus 로고
    • Metagenomic microbial community profiling using unique clade-specific marker genes
    • Segata N, Waldron L, Ballarini A, Narasimhan V, Jousson O, et al. (2012) Metagenomic microbial community profiling using unique clade-specific marker genes. Nat Methods 9: 811-814.
    • (2012) Nat Methods , vol.9 , pp. 811-814
    • Segata, N.1    Waldron, L.2    Ballarini, A.3    Narasimhan, V.4    Jousson, O.5
  • 14
    • 84883464181 scopus 로고    scopus 로고
    • Accurate and universal delineation of prokaryotic species
    • Mende DR, Sunagawa S, Zeller G, Bork P, (2013) Accurate and universal delineation of prokaryotic species. Nat Methods 10: 881-884.
    • (2013) Nat Methods , vol.10 , pp. 881-884
    • Mende, D.R.1    Sunagawa, S.2    Zeller, G.3    Bork, P.4
  • 15
    • 84861694782 scopus 로고    scopus 로고
    • The adult intestinal core microbiota is determined by analysis depth and health status
    • Salonen A, Salojarvi J, Lahti L, de Vos WM, (2012) The adult intestinal core microbiota is determined by analysis depth and health status. Clin Microbiol Infect 18 (Suppl 4):: 16-20.
    • (2012) Clin Microbiol Infect , vol.18 , Issue.SUPPL. 4 , pp. 16-20
    • Salonen, A.1    Salojarvi, J.2    Lahti, L.3    de Vos, W.M.4
  • 17
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar RC, (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461.
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 18
    • 30944466824 scopus 로고    scopus 로고
    • Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach
    • Manichanh C, Rigottier-Gois L, Bonnaud E, Gloux K, Pelletier E, et al. (2006) Reduced diversity of faecal microbiota in Crohn's disease revealed by a metagenomic approach. Gut 55: 205-211.
    • (2006) Gut , vol.55 , pp. 205-211
    • Manichanh, C.1    Rigottier-Gois, L.2    Bonnaud, E.3    Gloux, K.4    Pelletier, E.5
  • 19
    • 84864722033 scopus 로고    scopus 로고
    • Gut microbiota composition correlates with diet and health in the elderly
    • Claesson MJ, Jeffery IB, Conde S, Power SE, O'Connor EM, et al. (2012) Gut microbiota composition correlates with diet and health in the elderly. Nature 488: 178-184.
    • (2012) Nature , vol.488 , pp. 178-184
    • Claesson, M.J.1    Jeffery, I.B.2    Conde, S.3    Power, S.E.4    O'Connor, E.M.5
  • 21
    • 80053618114 scopus 로고    scopus 로고
    • Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes
    • Wu GD, Chen J, Hoffmann C, Bittinger K, Chen YY, et al. (2011) Linking Long-Term Dietary Patterns with Gut Microbial Enterotypes. Science 334: 105-108.
    • (2011) Science , vol.334 , pp. 105-108
    • Wu, G.D.1    Chen, J.2    Hoffmann, C.3    Bittinger, K.4    Chen, Y.Y.5
  • 23
    • 84865477413 scopus 로고    scopus 로고
    • Antibiotics in early life alter the murine colonic microbiome and adiposity
    • Cho I, Yamanishi S, Cox L, Methe BA, Zavadil J, et al. (2012) Antibiotics in early life alter the murine colonic microbiome and adiposity. Nature 488: 621-626.
    • (2012) Nature , vol.488 , pp. 621-626
    • Cho, I.1    Yamanishi, S.2    Cox, L.3    Methe, B.A.4    Zavadil, J.5
  • 24
    • 56849106496 scopus 로고    scopus 로고
    • The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing
    • Dethlefsen L, Huse S, Sogin ML, Relman DA, (2008) The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PLoS Biol 6: e280.
    • (2008) PLoS Biol , vol.6
    • Dethlefsen, L.1    Huse, S.2    Sogin, M.L.3    Relman, D.A.4
  • 26
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead B, Salzberg SL, (2012) Fast gapped-read alignment with Bowtie 2. Nat Methods 9: 357-359.
    • (2012) Nat Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 27
    • 84870837088 scopus 로고    scopus 로고
    • The GEM mapper: fast, accurate and versatile alignment by filtration
    • Marco-Sola S, Sammeth M, Guigo R, Ribeca P, (2012) The GEM mapper: fast, accurate and versatile alignment by filtration. Nat Methods 9: 1185-1188.
    • (2012) Nat Methods , vol.9 , pp. 1185-1188
    • Marco-Sola, S.1    Sammeth, M.2    Guigo, R.3    Ribeca, P.4
  • 28
    • 77955902981 scopus 로고    scopus 로고
    • Ab initio gene identification in metagenomic sequences
    • Zhu W, Lomsadze A, Borodovsky M, (2010) Ab initio gene identification in metagenomic sequences. Nucleic Acids Res 38: e132.
    • (2010) Nucleic Acids Res , vol.38
    • Zhu, W.1    Lomsadze, A.2    Borodovsky, M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.