-
1
-
-
0035072551
-
Clustering of highly homologous sequences to reduce the size of large protein databases
-
10.1093/bioinformatics/17.3.282, 11294794
-
Li W, Jaroszewski L, Godzik A. Clustering of highly homologous sequences to reduce the size of large protein databases. Bioinformatics 2001, 17(3):282. 10.1093/bioinformatics/17.3.282, 11294794.
-
(2001)
Bioinformatics
, vol.17
, Issue.3
, pp. 282
-
-
Li, W.1
Jaroszewski, L.2
Godzik, A.3
-
2
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
10.1128/AEM.00062-07, 1950982, 17586664
-
Wang Q, Garrity G, Tiedje J, Cole J. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Applied and environmental microbiology 2007, 73(16):5261. 10.1128/AEM.00062-07, 1950982, 17586664.
-
(2007)
Applied and environmental microbiology
, vol.73
, Issue.16
, pp. 5261
-
-
Wang, Q.1
Garrity, G.2
Tiedje, J.3
Cole, J.4
-
3
-
-
15444362001
-
Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness
-
10.1128/AEM.71.3.1501-1506.2005, 1065144, 15746353
-
Schloss P, Handelsman J. Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Applied and environmental microbiology 2005, 71(3):1501. 10.1128/AEM.71.3.1501-1506.2005, 1065144, 15746353.
-
(2005)
Applied and environmental microbiology
, vol.71
, Issue.3
, pp. 1501
-
-
Schloss, P.1
Handelsman, J.2
-
4
-
-
72949107142
-
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
10.1128/AEM.01541-09, 2786419, 19801464
-
Schloss P, Westcott S, Ryabin T, Hall J, Hartmann M, Hollister E, Lesniewski R, Oakley B, Parks D, Robinson C, et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Applied and environmental microbiology 2009, 75(23):7537. 10.1128/AEM.01541-09, 2786419, 19801464.
-
(2009)
Applied and environmental microbiology
, vol.75
, Issue.23
, pp. 7537
-
-
Schloss, P.1
Westcott, S.2
Ryabin, T.3
Hall, J.4
Hartmann, M.5
Hollister, E.6
Lesniewski, R.7
Oakley, B.8
Parks, D.9
Robinson, C.10
-
5
-
-
47949090280
-
PHYLIP (phylogeny inference package) version 3.6
-
Department of Genome Sciences, University of Washington, Seattle
-
Felsenstein J. PHYLIP (phylogeny inference package) version 3.6. Distributed by the author 2005, Department of Genome Sciences, University of Washington, Seattle.
-
(2005)
Distributed by the author
-
-
Felsenstein, J.1
-
6
-
-
77952254719
-
Alignment and clustering of phylogenetic markers- implications for microbial diversity studies
-
10.1186/1471-2105-11-152, 2859756, 20334679
-
White J, Navlakha S, Nagarajan N, Ghodsi M, Kingsford C, Pop M. Alignment and clustering of phylogenetic markers- implications for microbial diversity studies. BMC bioinformatics 2010, 11:152. 10.1186/1471-2105-11-152, 2859756, 20334679.
-
(2010)
BMC bioinformatics
, vol.11
, pp. 152
-
-
White, J.1
Navlakha, S.2
Nagarajan, N.3
Ghodsi, M.4
Kingsford, C.5
Pop, M.6
-
7
-
-
67650456399
-
Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information
-
Navlakha S, White J, Nagarajan N, Pop M, Kingsford C. Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information. Proc 13th Intl Conf on Research in Computational Molecular Biology (RECOMB) 2009, 5541:400-417.
-
(2009)
Proc 13th Intl Conf on Research in Computational Molecular Biology (RECOMB)
, vol.5541
, pp. 400-417
-
-
Navlakha, S.1
White, J.2
Nagarajan, N.3
Pop, M.4
Kingsford, C.5
-
8
-
-
33745634395
-
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
-
10.1093/bioinformatics/btl158, 16731699
-
Li W, Godzik A. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 2006, 22(13):1658. 10.1093/bioinformatics/btl158, 16731699.
-
(2006)
Bioinformatics
, vol.22
, Issue.13
, pp. 1658
-
-
Li, W.1
Godzik, A.2
-
9
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
10.1093/bioinformatics/btq461, 20709691
-
Edgar R. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 2010, 26(19):2460. 10.1093/bioinformatics/btq461, 20709691.
-
(2010)
Bioinformatics
, vol.26
, Issue.19
, pp. 2460
-
-
Edgar, R.1
-
11
-
-
69549112742
-
Accurate determination of microbial diversity from 454 pyrosequencing data
-
10.1038/nmeth.1361, 19668203
-
Quince C, Lanzén A, Curtis T, Davenport R, Hall N, Head I, Read L, Sloan W. Accurate determination of microbial diversity from 454 pyrosequencing data. Nature methods 2009, 6(9):639-641. 10.1038/nmeth.1361, 19668203.
-
(2009)
Nature methods
, vol.6
, Issue.9
, pp. 639-641
-
-
Quince, C.1
Lanzén, A.2
Curtis, T.3
Davenport, R.4
Hall, N.5
Head, I.6
Read, L.7
Sloan, W.8
-
12
-
-
77955251092
-
Ironing out the wrinkles in the rare biosphere through improved OTU clustering
-
10.1111/j.1462-2920.2010.02193.x, 2909393, 20236171
-
Huse S, Welch D, Morrison H, Sogin M. Ironing out the wrinkles in the rare biosphere through improved OTU clustering. Environmental microbiology 2010, 12(7):1889-1898. 10.1111/j.1462-2920.2010.02193.x, 2909393, 20236171.
-
(2010)
Environmental microbiology
, vol.12
, Issue.7
, pp. 1889-1898
-
-
Huse, S.1
Welch, D.2
Morrison, H.3
Sogin, M.4
-
14
-
-
85026758927
-
Approximate string-matching over suffix trees
-
Springer
-
Ukkonen E. Approximate string-matching over suffix trees. Combinatorial Pattern Matching 1993, 228-242. Springer.
-
(1993)
Combinatorial Pattern Matching
, pp. 228-242
-
-
Ukkonen, E.1
-
15
-
-
0014757386
-
A general method applicable to the search for similarities in the amino acid sequence of two proteins
-
10.1016/0022-2836(70)90057-4, 5420325
-
Needleman S, Wunsch C. A general method applicable to the search for similarities in the amino acid sequence of two proteins. Journal of molecular biology 1970, 48(3):443-453. 10.1016/0022-2836(70)90057-4, 5420325.
-
(1970)
Journal of molecular biology
, vol.48
, Issue.3
, pp. 443-453
-
-
Needleman, S.1
Wunsch, C.2
-
19
-
-
58749112734
-
A core gut microbiome in obese and lean twins
-
2677729, 19043404
-
Turnbaugh P, Hamady M, Yatsunenko T, Cantarel B, Duncan A, Ley R, Sogin M, Jones W, Roe B, Affourtit J, et al. A core gut microbiome in obese and lean twins. Nature 2008, 457(7228):480-484. 2677729, 19043404.
-
(2008)
Nature
, vol.457
, Issue.7228
, pp. 480-484
-
-
Turnbaugh, P.1
Hamady, M.2
Yatsunenko, T.3
Cantarel, B.4
Duncan, A.5
Ley, R.6
Sogin, M.7
Jones, W.8
Roe, B.9
Affourtit, J.10
-
20
-
-
0035175274
-
The RDP-II (ribosomal database project)
-
10.1093/nar/29.1.173, 29785, 11125082
-
Maidak B, Cole J, Lilburn T, Parker C, Saxman P, Farris R, Garrity G, Olsen G, Schmidt T, Tiedje J. The RDP-II (ribosomal database project). Nucleic acids research 2001, 29:173. 10.1093/nar/29.1.173, 29785, 11125082.
-
(2001)
Nucleic acids research
, vol.29
, pp. 173
-
-
Maidak, B.1
Cole, J.2
Lilburn, T.3
Parker, C.4
Saxman, P.5
Farris, R.6
Garrity, G.7
Olsen, G.8
Schmidt, T.9
Tiedje, J.10
-
21
-
-
0027968068
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
10.1093/nar/22.22.4673, 308517, 7984417
-
Thompson J, Higgins D, Gibson T. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic acids research 1994, 22(22):4673. 10.1093/nar/22.22.4673, 308517, 7984417.
-
(1994)
Nucleic acids research
, vol.22
, Issue.22
, pp. 4673
-
-
Thompson, J.1
Higgins, D.2
Gibson, T.3
-
22
-
-
3042666256
-
MUSCLE: multiple sequence alignment with high accuracy and high throughput
-
10.1093/nar/gkh340, 390337, 15034147
-
Edgar R. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic acids research 2004, 32(5):1792. 10.1093/nar/gkh340, 390337, 15034147.
-
(2004)
Nucleic acids research
, vol.32
, Issue.5
, pp. 1792
-
-
Edgar, R.1
|