-
1
-
-
72849144434
-
Sequencing technologies-The next generation
-
Metzker, M.L. (2010) Sequencing technologies-the next generation. Nat. Rev. Genet., 11, 31-46.
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 31-46
-
-
Metzker, M.L.1
-
2
-
-
85027927719
-
Enterotypes of the human gut microbiome
-
Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D.R., Fernandes, G.R., Tap, J., Bruls, T., Batto, J.M. et al. (2011) Enterotypes of the human gut microbiome. Nature, 473, 174-180.
-
(2011)
Nature
, vol.473
, pp. 174-180
-
-
Arumugam, M.1
Raes, J.2
Pelletier, E.3
Le Paslier, D.4
Yamada, T.5
Mende, D.R.6
Fernandes, G.R.7
Tap, J.8
Bruls, T.9
Batto, J.M.10
-
3
-
-
33845874101
-
An obesity-associated gut microbiome with increased capacity for energy harvest
-
Turnbaugh, P.J., Ley, R.E., Mahowald, M.A., Magrini, V., Mardis, E.R. and Gordon, J.I. (2006) An obesity-associated gut microbiome with increased capacity for energy harvest. Nature, 444, 1027-1031.
-
(2006)
Nature
, vol.444
, pp. 1027-1031
-
-
Turnbaugh, P.J.1
Ley, R.E.2
Mahowald, M.A.3
Magrini, V.4
Mardis, E.R.5
Gordon, J.I.6
-
4
-
-
78149272458
-
Genomic and functional adaptation in surface ocean planktonic prokaryotes
-
Yooseph, S., Nealson, K.H., Rusch, D.B., McCrow, J.P., Dupont, C.L., Kim, M., Johnson, J., Montgomery, R., Ferriera, S., Beeson, K. et al. (2010) Genomic and functional adaptation in surface ocean planktonic prokaryotes. Nature, 468, 60-66.
-
(2010)
Nature
, vol.468
, pp. 60-66
-
-
Yooseph, S.1
Nealson, K.H.2
Rusch, D.B.3
McCrow, J.P.4
Dupont, C.L.5
Kim, M.6
Johnson, J.7
Montgomery, R.8
Ferriera, S.9
Beeson, K.10
-
5
-
-
72949107142
-
Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss, P.D., Westcott, S.L., Ryabin, T., Hall, J.R., Hartmann, M., Hollister, E.B., Lesniewski, R.A., Oakley, B.B., Parks, D.H., Robinson, C.J. et al. (2009) Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol., 75, 7537-7541.
-
(2009)
Appl. Environ. Microbiol.
, vol.75
, pp. 7537-7541
-
-
Schloss, P.D.1
Westcott, S.L.2
Ryabin, T.3
Hall, J.R.4
Hartmann, M.5
Hollister, E.B.6
Lesniewski, R.A.7
Oakley, B.B.8
Parks, D.H.9
Robinson, C.J.10
-
6
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso, J.G., Kuczynski, J., Stombaugh, J., Bittinger, K., Bushman, F.D., Costello, E.K., Fierer, N., Pena, A.G., Goodrich, J.K., Gordon, J.I. et al. (2010) QIIME allows analysis of high-throughput community sequencing data. Nat. Methods, 7, 335-336.
-
(2010)
Nat. Methods
, vol.7
, pp. 335-336
-
-
Caporaso, J.G.1
Kuczynski, J.2
Stombaugh, J.3
Bittinger, K.4
Bushman, F.D.5
Costello, E.K.6
Fierer, N.7
Pena, A.G.8
Goodrich, J.K.9
Gordon, J.I.10
-
7
-
-
53549118607
-
The metagenomics RAST server-A public resource for the automatic phylogenetic and functional analysis of metagenomes
-
Meyer, F., Paarmann, D., D'Souza, M., Olson, R., Glass, E.M., Kubal, M., Paczian, T., Rodriguez, A., Stevens, R., Wilke, A. et al. (2008) The metagenomics RAST server-a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics, 9, 386.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 386
-
-
Meyer, F.1
Paarmann, D.2
D'Souza, M.3
Olson, R.4
Glass, E.M.5
Kubal, M.6
Paczian, T.7
Rodriguez, A.8
Stevens, R.9
Wilke, A.10
-
8
-
-
80052549504
-
Integrative analysis of environmental sequences using megan4
-
Huson, D.H., Mitra, S., Ruscheweyh, H.J., Weber, N. and Schuster, S.C. (2011) Integrative analysis of environmental sequences using MEGAN4. Genome Res., 21, 1552-1560.
-
(2011)
Genome Res.
, vol.21
, pp. 1552-1560
-
-
Huson, D.H.1
Mitra, S.2
Ruscheweyh, H.J.3
Weber, N.4
Schuster, S.C.5
-
9
-
-
77951945504
-
Identifying biologically relevant differences between metagenomic communities
-
Parks, D.H. and Beiko, R.G. (2010) Identifying biologically relevant differences between metagenomic communities. Bioinformatics, 26, 715-721.
-
(2010)
Bioinformatics
, vol.26
, pp. 715-721
-
-
Parks, D.H.1
Beiko, R.G.2
-
10
-
-
0042121252
-
GEPAS: A web-based resource for microarray gene expression data analysis
-
Herrero, J., Al-Shahrour, F., Diaz-Uriarte, R., Mateos, A., Vaquerizas, J.M., Santoyo, J. and Dopazo, J. (2003) GEPAS: a web-based resource for microarray gene expression data analysis. Nucleic Acids Res., 31, 3461-3467.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3461-3467
-
-
Herrero, J.1
Al-Shahrour, F.2
Diaz-Uriarte, R.3
Mateos, A.4
Vaquerizas, J.M.5
Santoyo, J.6
Dopazo, J.7
-
11
-
-
33646361583
-
Genepattern 2.0
-
Reich, M., Liefeld, T., Gould, J., Lerner, J., Tamayo, P. and Mesirov, J.P. (2006) GenePattern 2.0. Nat. Genet., 38, 500-501.
-
(2006)
Nat. Genet.
, vol.38
, pp. 500-501
-
-
Reich, M.1
Liefeld, T.2
Gould, J.3
Lerner, J.4
Tamayo, P.5
Mesirov, J.P.6
-
12
-
-
67849106535
-
MetaboAnalyst: A web server for metabolomic data analysis and interpretation
-
Xia, J., Psychogios, N., Young, N. and Wishart, D.S. (2009) MetaboAnalyst: a web server for metabolomic data analysis and interpretation. Nucleic Acids Res., 37, W652-W660.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Xia, J.1
Psychogios, N.2
Young, N.3
Wishart, D.S.4
-
13
-
-
13444273442
-
Bacmap: An interactive picture atlas of annotated bacterial genomes
-
Stothard, P., Van Domselaar, G., Shrivastava, S., Guo, A., O'Neill, B., Cruz, J., Ellison, M. and Wishart, D.S. (2005) BacMap: an interactive picture atlas of annotated bacterial genomes. Nucleic Acids Res., 33, D317-D320.
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Stothard, P.1
Van Domselaar, G.2
Shrivastava, S.3
Guo, A.4
O'Neill, B.5
Cruz, J.6
Ellison, M.7
Wishart, D.S.8
-
14
-
-
84862170720
-
Bacmap: An up-to-date electronic atlas of annotated bacterial genomes
-
Cruz, J., Liu, Y., Liang, Y., Zhou, Y., Wilson, M., Dennis, J.J., Stothard, P., Van Domselaar, G. and Wishart, D.S. (2012) BacMap: an up-to-date electronic atlas of annotated bacterial genomes. Nucleic Acids Res., 40, D599-D604.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Cruz, J.1
Liu, Y.2
Liang, Y.3
Zhou, Y.4
Wilson, M.5
Dennis, J.J.6
Stothard, P.7
Van Domselaar, G.8
Wishart, D.S.9
-
15
-
-
84859165788
-
The genomes online database (GOLD) v.4: Status of genomic and metagenomic projects and their associated metadata
-
Pagani, I., Liolios, K., Jansson, J., Chen, I.M., Smirnova, T., Nosrat, B., Markowitz, V.M. and Kyrpides, N.C. (2012) The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res., 40, D571-D579.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Pagani, I.1
Liolios, K.2
Jansson, J.3
Chen, I.M.4
Smirnova, T.5
Nosrat, B.6
Markowitz, V.M.7
Kyrpides, N.C.8
-
16
-
-
84857745267
-
Database resources of the National Center for Biotechnology Information
-
Sayers, E.W., Barrett, T., Benson, D.A., Bolton, E., Bryant, S.H., Canese, K., Chetvernin, V., Church, D.M., Dicuccio, M., Federhen, S. et al. (2012) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 40, D13-D25.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Sayers, E.W.1
Barrett, T.2
Benson, D.A.3
Bolton, E.4
Bryant, S.H.5
Canese, K.6
Chetvernin, V.7
Church, D.M.8
Dicuccio, M.9
Federhen, S.10
-
17
-
-
79251625980
-
Supervised classification of human microbiota
-
Knights, D., Costello, E.K. and Knight, R. (2011) Supervised classification of human microbiota. FEMS Microbiol. Rev., 35, 343-359.
-
(2011)
FEMS Microbiol. Rev.
, vol.35
, pp. 343-359
-
-
Knights, D.1
Costello, E.K.2
Knight, R.3
-
18
-
-
0035478854
-
Random forests
-
Breiman, L. (2001) Random forests. Machine Learn., 45, 5-32.
-
(2001)
Machine Learn.
, vol.45
, pp. 5-32
-
-
Breiman, L.1
-
19
-
-
33845703344
-
What is a support vector machine?
-
Noble, W.S. (2006) What is a support vector machine? Nat. Biotechnol., 24, 1565-1567.
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 1565-1567
-
-
Noble, W.S.1
-
20
-
-
0345040873
-
Classification and regression by random forest
-
Liaw, A. and Wiener, M. (2002) Classification and regression by random forest. R. News, 2, 18-22.
-
(2002)
R. News
, vol.2
, pp. 18-22
-
-
Liaw, A.1
Wiener, M.2
-
21
-
-
33646377650
-
Recursive SVM feature selection and sample classification for mass-spectrometry and microarray data
-
Zhang, X., Lu, X., Shi, Q., Xu, X.Q., Leung, H.C., Harris, L.N., Iglehart, J.D., Miron, A., Liu, J.S. and Wong, W.H. (2006) Recursive SVM feature selection and sample classification for mass-spectrometry and microarray data. BMC Bioinformatics, 7, 197.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 197
-
-
Zhang, X.1
Lu, X.2
Shi, Q.3
Xu, X.Q.4
Leung, H.C.5
Harris, L.N.6
Iglehart, J.D.7
Miron, A.8
Liu, J.S.9
Wong, W.H.10
-
22
-
-
66249145772
-
Statistical methods for detecting differentially abundant features in clinical metagenomic samples
-
White, J.R., Nagarajan, N. and Pop, M. (2009) Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Comput. Biol., 5, e1000352.
-
(2009)
PLoS Comput. Biol.
, vol.5
-
-
White, J.R.1
Nagarajan, N.2
Pop, M.3
-
23
-
-
67650763443
-
Visual and statistical comparison of metagenomes
-
Mitra, S., Klar, B. and Huson, D.H. (2009) Visual and statistical comparison of metagenomes. Bioinformatics, 25, 1849-1855.
-
(2009)
Bioinformatics
, vol.25
, pp. 1849-1855
-
-
Mitra, S.1
Klar, B.2
Huson, D.H.3
|