-
1
-
-
0032192790
-
Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products
-
Handelsman J., Rondon M.R., Brady S.F., Clardy J., Goodman R.M. Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products. Chem Biol 1998, 5:R245-R249.
-
(1998)
Chem Biol
, vol.5
, pp. R245-R249
-
-
Handelsman, J.1
Rondon, M.R.2
Brady, S.F.3
Clardy, J.4
Goodman, R.M.5
-
2
-
-
19144366982
-
The metagenomics of soil
-
Daniel R. The metagenomics of soil. Nat Rev Microbiol 2005, 3:470-478.
-
(2005)
Nat Rev Microbiol
, vol.3
, pp. 470-478
-
-
Daniel, R.1
-
3
-
-
84862989346
-
Metagenomics - a guide from sampling to data analysis
-
Thomas T., Gilbert J., Meyer F. Metagenomics - a guide from sampling to data analysis. Microb Inform Exp 2012, 2:3.
-
(2012)
Microb Inform Exp
, vol.2
, pp. 3
-
-
Thomas, T.1
Gilbert, J.2
Meyer, F.3
-
4
-
-
84929409466
-
Bacterial tag encoded FLX titanium amplicon pyrosequencing (bTEFAP) based assessment of prokaryotic diversity in metagenome of Lonar soda lake, India
-
Dudhagara P., Ghelani A., Patel R., Chaudhari R., Bhatt S. Bacterial tag encoded FLX titanium amplicon pyrosequencing (bTEFAP) based assessment of prokaryotic diversity in metagenome of Lonar soda lake, India. Genom Data 2015, 4:8-11.
-
(2015)
Genom Data
, vol.4
, pp. 8-11
-
-
Dudhagara, P.1
Ghelani, A.2
Patel, R.3
Chaudhari, R.4
Bhatt, S.5
-
5
-
-
84929346378
-
Cultivation-independent comprehensive survey of bacterial diversity in Tulsi Shyam Hot Springs, India
-
Ghelani A., Patel R., Mangrola A., Dudhagara P. Cultivation-independent comprehensive survey of bacterial diversity in Tulsi Shyam Hot Springs, India. Genom Data 2015, 4:54-56.
-
(2015)
Genom Data
, vol.4
, pp. 54-56
-
-
Ghelani, A.1
Patel, R.2
Mangrola, A.3
Dudhagara, P.4
-
6
-
-
84934281104
-
Metagenomic data of fungal internal transcribed Spacer and 18S rRNA gene sequences from Lonar lake sediment, India
-
Dudhagara P., Ghelani A., Bhavsar S., Bhatt S. Metagenomic data of fungal internal transcribed Spacer and 18S rRNA gene sequences from Lonar lake sediment, India. Data Brief 2015, 4:266-268.
-
(2015)
Data Brief
, vol.4
, pp. 266-268
-
-
Dudhagara, P.1
Ghelani, A.2
Bhavsar, S.3
Bhatt, S.4
-
7
-
-
84878354100
-
Pearls and pitfalls of genomics-based microbiome analysis
-
Carlos N., Tang Y.W., Pei Z. Pearls and pitfalls of genomics-based microbiome analysis. Emerg Microbes Infect 2012, 1:e45.
-
(2012)
Emerg Microbes Infect
, vol.1
, pp. e45
-
-
Carlos, N.1
Tang, Y.W.2
Pei, Z.3
-
8
-
-
84930682915
-
Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies
-
Oulas A., Pavloudi C., Polymenakou P., Pavlopoulos G.A., Papanikolaou N., Kotoulas G., et al. Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies. Bioinform Biol Insights 2015, 5:75-88.
-
(2015)
Bioinform Biol Insights
, vol.5
, pp. 75-88
-
-
Oulas, A.1
Pavloudi, C.2
Polymenakou, P.3
Pavlopoulos, G.A.4
Papanikolaou, N.5
Kotoulas, G.6
-
9
-
-
84922858689
-
Metagenomic sequence of saline desert microbiota from wild ass sanctuary, Little Rann of Kutch, Gujarat, India
-
Patel R., Mevada V., Prajapati D., Dudhagara P., Koringa P., Joshi C.G. Metagenomic sequence of saline desert microbiota from wild ass sanctuary, Little Rann of Kutch, Gujarat, India. Genom Data 2015, 3:137-139.
-
(2015)
Genom Data
, vol.3
, pp. 137-139
-
-
Patel, R.1
Mevada, V.2
Prajapati, D.3
Dudhagara, P.4
Koringa, P.5
Joshi, C.G.6
-
10
-
-
84929346377
-
Shotgun metagenomic sequencing based microbial diversity assessment of Lasundra hot spring, India
-
Mangrola A.V., Dudhagara P., Koringa P., Joshi C.G., Patel R.K. Shotgun metagenomic sequencing based microbial diversity assessment of Lasundra hot spring, India. Genom Data 2015, 4:73-75.
-
(2015)
Genom Data
, vol.4
, pp. 73-75
-
-
Mangrola, A.V.1
Dudhagara, P.2
Koringa, P.3
Joshi, C.G.4
Patel, R.K.5
-
11
-
-
58149505604
-
Discovering functional novelty in metagenomes: examples from light-mediated processes
-
Singh A.H., Doerks T., Letunic I., Raes J., Bork P. Discovering functional novelty in metagenomes: examples from light-mediated processes. J Bacteriol 2009, 191:32-41.
-
(2009)
J Bacteriol
, vol.191
, pp. 32-41
-
-
Singh, A.H.1
Doerks, T.2
Letunic, I.3
Raes, J.4
Bork, P.5
-
12
-
-
84929174408
-
CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers
-
Ounit R., Wanamaker S., Close T.J., Lonardi S. CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers. BMC Genomics 2015, 16:236.
-
(2015)
BMC Genomics
, vol.16
, pp. 236
-
-
Ounit, R.1
Wanamaker, S.2
Close, T.J.3
Lonardi, S.4
-
14
-
-
84921782403
-
The Amordad database engine for metagenomics
-
Behnam E., Smith A.D. The Amordad database engine for metagenomics. Bioinformatics 2014, 30:2949-2955.
-
(2014)
Bioinformatics
, vol.30
, pp. 2949-2955
-
-
Behnam, E.1
Smith, A.D.2
-
15
-
-
25644458211
-
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes
-
Overbeek R., Begley T., Butler R.M., Choudhuri J.V., Chuang H.Y., Cohoon M., et al. The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res 2005, 33:5691-5702.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5691-5702
-
-
Overbeek, R.1
Begley, T.2
Butler, R.M.3
Choudhuri, J.V.4
Chuang, H.Y.5
Cohoon, M.6
-
16
-
-
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., et al. The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 2008, 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
-
17
-
-
84891804612
-
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
-
Overbeek R., Olson R., Pusch G.D., Olsen G.J., Davis J.J., Disz T., et al. The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res 2014, 42:D206-D214.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D206-D214
-
-
Overbeek, R.1
Olson, R.2
Pusch, G.D.3
Olsen, G.J.4
Davis, J.J.5
Disz, T.6
-
18
-
-
84922220803
-
A RESTful API for accessing microbial community data for MG-RAST
-
Wilke A., Bischof J., Harrison T., Brettin T., D'Souza M., Gerlach W., et al. A RESTful API for accessing microbial community data for MG-RAST. PLoS Comput Biol 2015, 11:e1004008.
-
(2015)
PLoS Comput Biol
, vol.11
, pp. e1004008
-
-
Wilke, A.1
Bischof, J.2
Harrison, T.3
Brettin, T.4
D'Souza, M.5
Gerlach, W.6
-
19
-
-
84925638715
-
Web resources for microbial data
-
Sun Q., Liu L., Wu L., Li W., Liu Q., Zhang J., et al. Web resources for microbial data. Genomics Proteomics Bioinformatics 2015, 13:69-72.
-
(2015)
Genomics Proteomics Bioinformatics
, vol.13
, pp. 69-72
-
-
Sun, Q.1
Liu, L.2
Wu, L.3
Li, W.4
Liu, Q.5
Zhang, J.6
-
20
-
-
38549139537
-
IMG/M: a data management and analysis system for metagenomes
-
Markowitz V.M., Ivanova N.N., Szeto E., Palaniappan K., Chu K., Dalevi D., et al. IMG/M: a data management and analysis system for metagenomes. Nucleic Acids Res 2008, 36:D534-D538.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. D534-D538
-
-
Markowitz, V.M.1
Ivanova, N.N.2
Szeto, E.3
Palaniappan, K.4
Chu, K.5
Dalevi, D.6
-
21
-
-
84862024797
-
IMG/M: the integrated metagenome data management and comparative analysis system
-
Markowitz V.M., Chen I.M., Chu K., Szeto E., Palaniappan K., Grechkin Y., et al. IMG/M: the integrated metagenome data management and comparative analysis system. Nucleic Acids Res 2012, 40:D123-D129.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D123-D129
-
-
Markowitz, V.M.1
Chen, I.M.2
Chu, K.3
Szeto, E.4
Palaniappan, K.5
Grechkin, Y.6
-
22
-
-
84891800783
-
IMG/M 4 version of the integrated metagenome comparative analysis system
-
Markowitz V.M., Chen I.M., Chu K., Szeto E., Palaniappan K., Pillay M., et al. IMG/M 4 version of the integrated metagenome comparative analysis system. Nucleic Acids Res 2014, 42:D568-D573.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D568-D573
-
-
Markowitz, V.M.1
Chen, I.M.2
Chu, K.3
Szeto, E.4
Palaniappan, K.5
Pillay, M.6
-
23
-
-
84861898310
-
IMG: the Integrated Microbial Genomes database and comparative analysis system
-
Markowitz V.M., Chen I.M., Palaniappan K., Chu K., Szeto E., Grechkin Y., et al. IMG: the Integrated Microbial Genomes database and comparative analysis system. Nucleic Acids Res 2012, 40:D115-D122.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D115-D122
-
-
Markowitz, V.M.1
Chen, I.M.2
Palaniappan, K.3
Chu, K.4
Szeto, E.5
Grechkin, Y.6
-
24
-
-
84863628126
-
IMG/M-HMP: a metagenome comparative analysis system for the human microbiome project
-
Markowitz V.M., Chen I.M., Chu K., Szeto E., Palaniappan K., Jacob B., et al. IMG/M-HMP: a metagenome comparative analysis system for the human microbiome project. PLoS One 2012, 7:e40151.
-
(2012)
PLoS One
, vol.7
, pp. e40151
-
-
Markowitz, V.M.1
Chen, I.M.2
Chu, K.3
Szeto, E.4
Palaniappan, K.5
Jacob, B.6
-
25
-
-
77957761759
-
METAREP: JCVI metagenomics reports - an open source tool for high-performance comparative metagenomics
-
Goll J., Rusch D.B., Tanenbaum D.M., Thiagarajan M., Li K., Methe B.A., et al. METAREP: JCVI metagenomics reports - an open source tool for high-performance comparative metagenomics. Bioinformatics 2010, 26:2631-2632.
-
(2010)
Bioinformatics
, vol.26
, pp. 2631-2632
-
-
Goll, J.1
Rusch, D.B.2
Tanenbaum, D.M.3
Thiagarajan, M.4
Li, K.5
Methe, B.A.6
-
26
-
-
84862184918
-
A case study for large-scale human microbiome analysis using JCVI's metagenomics reports (METAREP)
-
Goll J., Thiagarajan M., Abubucker S., Huttenhower C., Yooseph S., Methé B.A. A case study for large-scale human microbiome analysis using JCVI's metagenomics reports (METAREP). PLoS One 2012, 7:e29044.
-
(2012)
PLoS One
, vol.7
, pp. e29044
-
-
Goll, J.1
Thiagarajan, M.2
Abubucker, S.3
Huttenhower, C.4
Yooseph, S.5
Methé, B.A.6
-
27
-
-
79960030549
-
CoMet - a web server for comparative functional profiling of metagenomes
-
Lingner T., Asshauer K.P., Schreiber F., Meinicke P. CoMet - a web server for comparative functional profiling of metagenomes. Nucleic Acids Res 2011, 39:W518-W523.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. W518-W523
-
-
Lingner, T.1
Asshauer, K.P.2
Schreiber, F.3
Meinicke, P.4
-
28
-
-
84864462144
-
METAGENassist: a comprehensive web server for comparative metagenomics
-
Arndt D., Xia J., Liu Y., Zhou Y., Guo A.C., Cruz J.A., et al. METAGENassist: a comprehensive web server for comparative metagenomics. Nucleic Acids Res 2012, 40:W88-W95.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. W88-W95
-
-
Arndt, D.1
Xia, J.2
Liu, Y.3
Zhou, Y.4
Guo, A.C.5
Cruz, J.A.6
-
29
-
-
79961203060
-
MetaABC - an integrated metagenomics platform for data adjustment, binning and clustering
-
Su C.H., Hsu M.T., Wang T.Y., Chiang S., Cheng J.H., Weng F.C., et al. MetaABC - an integrated metagenomics platform for data adjustment, binning and clustering. Bioinformatics 2011, 27:2298-2299.
-
(2011)
Bioinformatics
, vol.27
, pp. 2298-2299
-
-
Su, C.H.1
Hsu, M.T.2
Wang, T.Y.3
Chiang, S.4
Cheng, J.H.5
Weng, F.C.6
-
30
-
-
84899824262
-
MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences
-
Luo C., Rodriguez-R L.M., Konstantinidis K.T. MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences. Nucleic Acids Res 2014, 42:e73.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. e73
-
-
Luo, C.1
Rodriguez-R, L.M.2
Konstantinidis, K.T.3
-
31
-
-
84876533577
-
MetaMicrobesOnline: phylogenomic analysis of microbial communities
-
Chivian D., Dehal P.S., Keller K., Arkin A.P. MetaMicrobesOnline: phylogenomic analysis of microbial communities. Nucleic Acids Res 2013, 41:D648-D654.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D648-D654
-
-
Chivian, D.1
Dehal, P.S.2
Keller, K.3
Arkin, A.P.4
-
32
-
-
75549088819
-
MicrobesOnline: an integrated portal for comparative and functional genomics
-
Dehal P.S., Joachimiak M.P., Price M.N., Bates J.T., Baumohl J.K., Chivian D., et al. MicrobesOnline: an integrated portal for comparative and functional genomics. Nucleic Acids Res 2010, 38:D396-D400.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. D396-D400
-
-
Dehal, P.S.1
Joachimiak, M.P.2
Price, M.N.3
Bates, J.T.4
Baumohl, J.K.5
Chivian, D.6
-
33
-
-
84891822499
-
EBI metagenomics-a new resource for the analysis and archiving of metagenomic data
-
Hunter S., Corbett M., Denise H., Fraser M., Gonzalez-Beltran A., Hunter C., et al. EBI metagenomics-a new resource for the analysis and archiving of metagenomic data. Nucleic Acids Res 2014, 42:D600-D606.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. D600-D606
-
-
Hunter, S.1
Corbett, M.2
Denise, H.3
Fraser, M.4
Gonzalez-Beltran, A.5
Hunter, C.6
-
34
-
-
33947215475
-
CAMERA: a community resource for metagenomics
-
Seshadri R., Kravitz S.A., Smarr L., Gilna P., Frazier M. CAMERA: a community resource for metagenomics. PLoS Biol 2007, 5:e75.
-
(2007)
PLoS Biol
, vol.5
, pp. e75
-
-
Seshadri, R.1
Kravitz, S.A.2
Smarr, L.3
Gilna, P.4
Frazier, M.5
-
35
-
-
78651266825
-
Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: the CAMERA resource
-
Sun S., Chen J., Li W., Altintas I., Lin A., Peltier S., et al. Community cyberinfrastructure for Advanced Microbial Ecology Research and Analysis: the CAMERA resource. Nucleic Acids Res 2011, 39:D546-D551.
-
(2011)
Nucleic Acids Res
, vol.39
, pp. D546-D551
-
-
Sun, S.1
Chen, J.2
Li, W.3
Altintas, I.4
Lin, A.5
Peltier, S.6
-
36
-
-
80054911634
-
METAVIR: a web server dedicated to virome analysis
-
Roux S., Faubladier M., Mahul A., Paulhe N., Bernard A., Debroas D., et al. METAVIR: a web server dedicated to virome analysis. Bioinformatics 2011, 27:3074-3075.
-
(2011)
Bioinformatics
, vol.27
, pp. 3074-3075
-
-
Roux, S.1
Faubladier, M.2
Mahul, A.3
Paulhe, N.4
Bernard, A.5
Debroas, D.6
-
37
-
-
84899552918
-
METAVIR 2: new tools for viral metagenome comparison and assembled virome analysis
-
Roux S., Tournayre J., Mahul A., Debroas D., Enault F. METAVIR 2: new tools for viral metagenome comparison and assembled virome analysis. BMC Bioinformatics 2014, 15:76.
-
(2014)
BMC Bioinformatics
, vol.15
, pp. 76
-
-
Roux, S.1
Tournayre, J.2
Mahul, A.3
Debroas, D.4
Enault, F.5
-
38
-
-
84865205784
-
VIROME: a standard operating procedure for analysis of viral metagenome sequences
-
Wommack K.E., Bhavsar J., Polson S.W., Chen J., Dumas M., Srinivasiah S., et al. VIROME: a standard operating procedure for analysis of viral metagenome sequences. Stand Genomic Sci 2012, 6:421-433.
-
(2012)
Stand Genomic Sci
, vol.6
, pp. 421-433
-
-
Wommack, K.E.1
Bhavsar, J.2
Polson, S.W.3
Chen, J.4
Dumas, M.5
Srinivasiah, S.6
|