-
1
-
-
0018974560
-
The phylogeny of prokaryotes
-
Fox GE, Stackebrandt E, Hespell RB, Gibson J, Maniloff J, et al. (1980) The phylogeny of prokaryotes. Science 209: 457-463.
-
(1980)
Science
, vol.209
, pp. 457-463
-
-
Fox, G.E.1
Stackebrandt, E.2
Hespell, R.B.3
Gibson, J.4
Maniloff, J.5
-
2
-
-
34548293679
-
Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
-
Wang Q, Garrity GM, Tiedje JM, Cole JR, (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73: 5261-5267.
-
(2007)
Appl Environ Microbiol
, vol.73
, pp. 5261-5267
-
-
Wang, Q.1
Garrity, G.M.2
Tiedje, J.M.3
Cole, J.R.4
-
3
-
-
58149200948
-
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
-
Cole JR, Wang Q, Cardenas E, Fish J, Chai B, et al. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37: 141-145.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 141-145
-
-
Cole, J.R.1
Wang, Q.2
Cardenas, E.3
Fish, J.4
Chai, B.5
-
4
-
-
20544444045
-
Diversity of the human intestinal microbial flora
-
Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L, et al. (2005) Diversity of the human intestinal microbial flora. Science 308: 1635-1638.
-
(2005)
Science
, vol.308
, pp. 1635-1638
-
-
Eckburg, P.B.1
Bik, E.M.2
Bernstein, C.N.3
Purdom, E.4
Dethlefsen, L.5
-
5
-
-
33747073504
-
Microbial diversity in the deep sea and the underexplored "rare biosphere"
-
Sogin ML, Morrison HG, Huber JA, Mark Welch D, Huse SM, et al. (2006) Microbial diversity in the deep sea and the underexplored "rare biosphere". Proc Natl Acad Sci U S A 103: 12115-12120.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 12115-12120
-
-
Sogin, M.L.1
Morrison, H.G.2
Huber, J.A.3
Mark Welch, D.4
Huse, S.M.5
-
6
-
-
69549112742
-
Accurate determination of microbial diversity from 454 pyrosequencing data
-
Quince C, Lanzén A, Curtis TP, Davenport RJ, Hall N, et al. (2009) Accurate determination of microbial diversity from 454 pyrosequencing data. Nat Methods 6: 639-641.
-
(2009)
Nat Methods
, vol.6
, pp. 639-641
-
-
Quince, C.1
Lanzén, A.2
Curtis, T.P.3
Davenport, R.J.4
Hall, N.5
-
7
-
-
24044455869
-
Genome sequencing in microfabricated high-density picolitre reactors
-
Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, et al. (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437: 376-380.
-
(2005)
Nature
, vol.437
, pp. 376-380
-
-
Margulies, M.1
Egholm, M.2
Altman, W.E.3
Attiya, S.4
Bader, J.S.5
-
8
-
-
79959438245
-
Systematic exploration of error sources in pyrosequencing flowgram data
-
Balzer S, Malde K, Jonassen I, (2011) Systematic exploration of error sources in pyrosequencing flowgram data. Bioinformatics 27: 304-309.
-
(2011)
Bioinformatics
, vol.27
, pp. 304-309
-
-
Balzer, S.1
Malde, K.2
Jonassen, I.3
-
9
-
-
79956044149
-
Accuracy and quality assessment of 454 GS-FLX Titanium pyrosequencing
-
Gilles A, Meglécz E, Pech N, Ferreira S, Malausa T, et al. (2011) Accuracy and quality assessment of 454 GS-FLX Titanium pyrosequencing. BMC Genomics 12: 245.
-
(2011)
BMC Genomics
, vol.12
, pp. 245
-
-
Gilles, A.1
Meglécz, E.2
Pech, N.3
Ferreira, S.4
Malausa, T.5
-
10
-
-
34948842866
-
Accuracy and quality of massively parallel DNA pyrosequencing
-
Huse SM, Huber JA, Morrison HG, Sogin ML, Welch DM, (2007) Accuracy and quality of massively parallel DNA pyrosequencing. Genome Biol 8: R143.
-
(2007)
Genome Biol
, vol.8
-
-
Huse, S.M.1
Huber, J.A.2
Morrison, H.G.3
Sogin, M.L.4
Welch, D.M.5
-
11
-
-
73349110099
-
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates
-
Kunin V, Engelbrektson A, Ochman H, Hugenholtz P, (2010) Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. Environ Microbiol 12: 118-123.
-
(2010)
Environ Microbiol
, vol.12
, pp. 118-123
-
-
Kunin, V.1
Engelbrektson, A.2
Ochman, H.3
Hugenholtz, P.4
-
12
-
-
79251565226
-
Removing noise from pyrosequenced amplicons
-
Quince C, Lanzen A, Davenport RJ, Turnbaugh PJ, (2011) Removing noise from pyrosequenced amplicons. BMC Bioinformatics 12: 38.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 38
-
-
Quince, C.1
Lanzen, A.2
Davenport, R.J.3
Turnbaugh, P.J.4
-
13
-
-
77952243141
-
QIIME allows analysis of high-throughput community sequencing data
-
Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, 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
-
14
-
-
72949107142
-
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
-
Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, 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
-
15
-
-
77956304094
-
Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions
-
Reeder J, Knight R, (2010) Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions. Nat Methods 7: 668-669.
-
(2010)
Nat Methods
, vol.7
, pp. 668-669
-
-
Reeder, J.1
Knight, R.2
-
16
-
-
79952006773
-
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons
-
Haas BJ, Gevers D, Earl AM, Feldgarden M, Ward DV, et al. (2011) Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. Genome Res 21: 494-504.
-
(2011)
Genome Res
, vol.21
, pp. 494-504
-
-
Haas, B.J.1
Gevers, D.2
Earl, A.M.3
Feldgarden, M.4
Ward, D.V.5
-
17
-
-
83355173006
-
Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies
-
Schloss PD, Gevers D, Westcott SL, (2011) Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies. PLoS One 6: e27310.
-
(2011)
PLoS One
, vol.6
-
-
Schloss, P.D.1
Gevers, D.2
Westcott, S.L.3
-
18
-
-
79961181125
-
UCHIME improves sensitivity and speed of chimera detection
-
Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R, (2011) UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27: 2194-2200.
-
(2011)
Bioinformatics
, vol.27
, pp. 2194-2200
-
-
Edgar, R.C.1
Haas, B.J.2
Clemente, J.C.3
Quince, C.4
Knight, R.5
-
19
-
-
77955251092
-
Ironing out the wrinkles in the rare biosphere through improved OTU clustering
-
Huse SM, Welch DM, Morrison HG, Sogin ML, (2010) Ironing out the wrinkles in the rare biosphere through improved OTU clustering. Environ Microbiol 12: 1889-1898.
-
(2010)
Environ Microbiol
, vol.12
, pp. 1889-1898
-
-
Huse, S.M.1
Welch, D.M.2
Morrison, H.G.3
Sogin, M.L.4
-
20
-
-
84860353306
-
Fast, accurate error-correction of amplicon pyrosequences using Acacia
-
Bragg L, Stone G, Imelfort M, Hugenholtz P, Tyson GW, (2012) Fast, accurate error-correction of amplicon pyrosequences using Acacia. Nat Methods 9: 425-426.
-
(2012)
Nat Methods
, vol.9
, pp. 425-426
-
-
Bragg, L.1
Stone, G.2
Imelfort, M.3
Hugenholtz, P.4
Tyson, G.W.5
-
21
-
-
75249107844
-
PyNAST: a flexible tool for aligning sequences to a template alignment
-
Caporaso JG, Bittinger K, Bushman FD, DeSantis TZ, Andersen GL, et al. (2010) PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics 26: 266-267.
-
(2010)
Bioinformatics
, vol.26
, pp. 266-267
-
-
Caporaso, J.G.1
Bittinger, K.2
Bushman, F.D.3
DeSantis, T.Z.4
Andersen, G.L.5
-
22
-
-
67249096511
-
ESPRIT: estimating species richness using large collections of 16S rRNA pyrosequences
-
Sun Y, Cai Y, Liu L, Yu F, Farrell ML, et al. (2009) ESPRIT: estimating species richness using large collections of 16S rRNA pyrosequences. Nucleic Acids Res 37: e76.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Sun, Y.1
Cai, Y.2
Liu, L.3
Yu, F.4
Farrell, M.L.5
-
23
-
-
0026749345
-
A genetic mapping system in Caenorhabditis elegans based on polymorphic sequence-tagged sites
-
Williams BD, Schrank B, Huynh C, Shownkeen R, Waterston RH, (1992) A genetic mapping system in Caenorhabditis elegans based on polymorphic sequence-tagged sites. Genetics 131: 609-624.
-
(1992)
Genetics
, vol.131
, pp. 609-624
-
-
Williams, B.D.1
Schrank, B.2
Huynh, C.3
Shownkeen, R.4
Waterston, R.H.5
-
24
-
-
34548588390
-
Targeted high-throughput sequencing of tagged nucleic acid samples
-
Meyer M, Stenzel U, Myles S, Prüfer K, Hofreiter M, (2007) Targeted high-throughput sequencing of tagged nucleic acid samples. Nucleic Acids Res 35: e97.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Meyer, M.1
Stenzel, U.2
Myles, S.3
Prüfer, K.4
Hofreiter, M.5
-
25
-
-
0035795219
-
Design and evaluation of PCR primers to amplify bacterial 16S ribosomal DNA fragments used for community fingerprinting
-
Watanabe K, Kodama Y, Harayama S, (2001) Design and evaluation of PCR primers to amplify bacterial 16S ribosomal DNA fragments used for community fingerprinting. J Microbiol Methods 44: 253-262.
-
(2001)
J Microbiol Methods
, vol.44
, pp. 253-262
-
-
Watanabe, K.1
Kodama, Y.2
Harayama, S.3
-
26
-
-
36448991500
-
Clustal W and Clustal X version 2.0
-
Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, et al. (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947-2948.
-
(2007)
Bioinformatics
, vol.23
, pp. 2947-2948
-
-
Larkin, M.A.1
Blackshields, G.2
Brown, N.P.3
Chenna, R.4
McGettigan, P.A.5
-
27
-
-
3042666256
-
MUSCLE: multiple sequence alignment with high accuracy and high throughput
-
Edgar RC, (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
|