-
1
-
-
84861197530
-
Gut-liver axis: the impact of gut microbiota on non alcoholic fatty liver disease
-
Compare D, Coccoli P, Rocco A, Nardone OM, De Maria S, Cartenì M, et al. Gut-liver axis: the impact of gut microbiota on non alcoholic fatty liver disease. Nutr Metab Cardiovasc Dis. 2012;22:471-6.
-
(2012)
Nutr Metab Cardiovasc Dis
, vol.22
, pp. 471-476
-
-
Compare, D.1
Coccoli, P.2
Rocco, A.3
Nardone, O.M.4
Maria, S.5
Cartenì, M.6
-
2
-
-
35348857386
-
Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases
-
Frank DN, St Amand AL, Feldman RA, Boedeker EC, Harpaz N, Pace NR. Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. Proc Natl Acad Sci U S A. 2007;104:13780-5.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 13780-13785
-
-
Frank, D.N.1
St Amand, A.L.2
Feldman, R.A.3
Boedeker, E.C.4
Harpaz, N.5
Pace, N.R.6
-
3
-
-
84894118144
-
Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders
-
Hsiao EY, McBride SW, Hsien S, Sharon G, Hyde ER, McCue T, et al. Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. Cell. 2013;155:1451-63.
-
(2013)
Cell
, vol.155
, pp. 1451-1463
-
-
Hsiao, E.Y.1
McBride, S.W.2
Hsien, S.3
Sharon, G.4
Hyde, E.R.5
McCue, T.6
-
4
-
-
79952758083
-
Human oral, gut, and plaque microbiota in patients with atherosclerosis
-
Koren O, Spor A, Felin J, Fåk F, Stombaugh J, Tremaroli V, et al. Human oral, gut, and plaque microbiota in patients with atherosclerosis. Proc Natl Acad Sci U S A. 2011;108(Suppl Supplement_1):4592-8.
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 4592-4598
-
-
Koren, O.1
Spor, A.2
Felin, J.3
Fåk, F.4
Stombaugh, J.5
Tremaroli, V.6
-
7
-
-
33744804299
-
Metagenomic analysis of the human distal gut microbiome
-
Gill S, Pop M, DeBoy R, Eckburg P. Metagenomic analysis of the human distal gut microbiome. Sci (80-). 2006;312:1355-9.
-
(2006)
Sci (80-)
, vol.312
, pp. 1355-1359
-
-
Gill, S.1
Pop, M.2
DeBoy, R.3
Eckburg, P.4
-
8
-
-
84861760530
-
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
-
Peng Y, Leung HCM, Yiu SM, Chin FYL. IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth. Bioinformatics. 2012;28:1420-8.
-
(2012)
Bioinformatics
, vol.28
, pp. 1420-1428
-
-
Peng, Y.1
Leung, H.C.M.2
Yiu, S.M.3
Chin, F.Y.L.4
-
10
-
-
85018489610
-
Application note MEGAHIT: an ultra-fast single-node solution for large and com-plex metagenomics assembly via succinct de Bruijn graph.
-
Li D, Liu C, Luo R, Sadakane K, Lam T. Application note MEGAHIT: an ultra-fast single-node solution for large and com-plex metagenomics assembly via succinct de Bruijn graph. 2015. p. 3-4.
-
(2015)
, pp. 3-4
-
-
Li, D.1
Liu, C.2
Luo, R.3
Sadakane, K.4
Lam, T.5
-
11
-
-
84867397631
-
MetaVelvet: An extension of Velvet assembler to de novo metagenome assembly from short sequence reads
-
Namiki T, Hachiya T, Tanaka H, Sakakibara Y. MetaVelvet: An extension of Velvet assembler to de novo metagenome assembly from short sequence reads. Nucleic Acids Res. 2012;40:e155.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Namiki, T.1
Hachiya, T.2
Tanaka, H.3
Sakakibara, Y.4
-
12
-
-
85018490832
-
Genome analysis MOCAT2: a metagenomic assembly
-
Kultima JR, Coelho LP, Forslund K, Huerta-J, Li SS, Driessen M, et al. Genome analysis MOCAT2: a metagenomic assembly, annotation and profiling framework. 2016. p. 8-10.
-
(2016)
annotation and profiling framework.
, pp. 8-10
-
-
Kultima, J.R.1
Coelho, L.P.2
Forslund, K.3
Huerta, -J.4
Li, S.S.5
Driessen, M.6
-
13
-
-
84949675208
-
The microbiome quality control project: baseline study design and future directions
-
Sinha R, Abnet CC, White O, Knight R, Huttenhower C. The microbiome quality control project: baseline study design and future directions. Genome Biol. 2015;16:276.
-
(2015)
Genome Biol
, vol.16
, pp. 276
-
-
Sinha, R.1
Abnet, C.C.2
White, O.3
Knight, R.4
Huttenhower, C.5
-
14
-
-
84927744062
-
Accurate, multi-kb reads resolve complex populations and detect rare microorganisms
-
Sharon I, Kertesz M, Hug LA, Pushkarev D, Blauwkamp TA, Castelle CJ, et al. Accurate, multi-kb reads resolve complex populations and detect rare microorganisms. Genome Res. 2015;25:534-43.
-
(2015)
Genome Res
, vol.25
, pp. 534-543
-
-
Sharon, I.1
Kertesz, M.2
Hug, L.A.3
Pushkarev, D.4
Blauwkamp, T.A.5
Castelle, C.J.6
-
15
-
-
35348968286
-
The human microbiome project: exploring the microbial part of ourselves in a changing world
-
Turnbaugh PJ, Ley RE, Hamady M, Fraser-liggett C, Knight R, Gordon JI. The human microbiome project: exploring the microbial part of ourselves in a changing world. Nature. 2007;449:804-10.
-
(2007)
Nature
, vol.449
, pp. 804-810
-
-
Turnbaugh, P.J.1
Ley, R.E.2
Hamady, M.3
Fraser-liggett, C.4
Knight, R.5
Gordon, J.I.6
-
17
-
-
84878647680
-
Comparative metagenomic and rRNA microbial diversity characterization using Archaeal and Bacterial synthetic communities.
-
Shakya M, Quince C, Campbell J, Yang Z, Schadt C, Podar M.
-
Shakya M, Quince C, Campbell J, Yang Z, Schadt C, Podar M. Comparative metagenomic and rRNA microbial diversity characterization using Archaeal and Bacterial synthetic communities. Environ Microbiol. 2014;15:1882-99.
-
(2014)
Environ Microbiol.
, vol.15
, pp. 1882-1899
-
-
-
18
-
-
84911364768
-
Omega: an overlap-graph de novo assembler for metagenomics
-
Haider B, Ahn TH, Bushnell B, Chai J, Copeland A, Pan C. Omega: an overlap-graph de novo assembler for metagenomics. Bioinformatics. 2014;30:2717-22.
-
(2014)
Bioinformatics
, vol.30
, pp. 2717-2722
-
-
Haider, B.1
Ahn, T.H.2
Bushnell, B.3
Chai, J.4
Copeland, A.5
Pan, C.6
-
19
-
-
84942887758
-
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
-
Luo R, Liu B, Xie Y, Li Z, Huang W, Yuan J, et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler. Gigascience. 2012;1:18.
-
(2012)
Gigascience
, vol.1
, pp. 18
-
-
Luo, R.1
Liu, B.2
Xie, Y.3
Li, Z.4
Huang, W.5
Yuan, J.6
-
20
-
-
84871396799
-
Ray Meta: scalable de novo metagenome assembly and profiling
-
Boisvert S, Raymond F, Godzaridis E, Laviolette F, Corbeil J. Ray Meta: scalable de novo metagenome assembly and profiling. Genome Biol. 2012;13:R122.
-
(2012)
Genome Biol
, vol.13
, pp. R122
-
-
Boisvert, S.1
Raymond, F.2
Godzaridis, E.3
Laviolette, F.4
Corbeil, J.5
-
21
-
-
84946781151
-
Library preparation methodology can influence genomic and functional predictions in human microbiome research
-
Jones MB, Highlander SK, Anderson EL, Li W, Dayrit M, Klitgord N, et al. Library preparation methodology can influence genomic and functional predictions in human microbiome research. Proc Natl Acad Sci U S A. 2015;112:1519288112.
-
(2015)
Proc Natl Acad Sci U S A
, vol.112
, pp. 1519288112
-
-
Jones, M.B.1
Highlander, S.K.2
Anderson, E.L.3
Li, W.4
Dayrit, M.5
Klitgord, N.6
-
22
-
-
84905049901
-
Trimmomatic: a flexible trimmer for Illumina sequence data
-
Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114-20. doi: 10.1093/bioinformatics/btu170.
-
(2014)
Bioinformatics
, vol.30
, pp. 2114-2120
-
-
Bolger, A.M.1
Lohse, M.2
Usadel, B.3
-
23
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform.
-
Li H, Richard D.
-
Li H, Richard D. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics. 25.14 2009;1754-60.
-
(2009)
Bioinformatics.
, vol.25
, Issue.14
, pp. 1754-1760
-
-
-
24
-
-
33750976398
-
MetaGene: prokaryotic gene finding from environmental genome shotgun sequences.
-
Noguchi H, Park J, Takagi T. MetaGene: prokaryotic gene finding from environmental genome shotgun sequences. Nucleic Acids Res. 2006;34:5623-30.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 5623-5630
-
-
Noguchi, H.1
Park, J.2
Takagi, T.3
-
25
-
-
33745634395
-
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences.
-
Li W, Godzik A. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics. 2006;22:1658-9.
-
(2006)
Bioinformatics.
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
|