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Items: 1 to 20 of 128

1.

IMG: the Integrated Microbial Genomes database and comparative analysis system.

Markowitz VM, Chen IM, Palaniappan K, Chu K, Szeto E, Grechkin Y, Ratner A, Jacob B, Huang J, Williams P, Huntemann M, Anderson I, Mavromatis K, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2012 Jan;40(Database issue):D115-22. doi: 10.1093/nar/gkr1044.

2.

IMG 4 version of the integrated microbial genomes comparative analysis system.

Markowitz VM, Chen IM, Palaniappan K, Chu K, Szeto E, Pillay M, Ratner A, Huang J, Woyke T, Huntemann M, Anderson I, Billis K, Varghese N, Mavromatis K, Pati A, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2014 Jan;42(Database issue):D560-7. doi: 10.1093/nar/gkt963. Epub 2013 Oct 27.

3.

The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions.

Markowitz VM, Szeto E, Palaniappan K, Grechkin Y, Chu K, Chen IM, Dubchak I, Anderson I, Lykidis A, Mavromatis K, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2008 Jan;36(Database issue):D528-33. Epub 2007 Oct 12.

4.

The integrated microbial genomes system: an expanding comparative analysis resource.

Markowitz VM, Chen IM, Palaniappan K, Chu K, Szeto E, Grechkin Y, Ratner A, Anderson I, Lykidis A, Mavromatis K, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2010 Jan;38(Database issue):D382-90. doi: 10.1093/nar/gkp887. Epub 2009 Oct 28.

5.

IMG/M: the integrated metagenome data management and comparative analysis system.

Markowitz VM, Chen IM, Chu K, Szeto E, Palaniappan K, Grechkin Y, Ratner A, Jacob B, Pati A, Huntemann M, Liolios K, Pagani I, Anderson I, Mavromatis K, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2012 Jan;40(Database issue):D123-9. doi: 10.1093/nar/gkr975. Epub 2011 Nov 15.

6.

IMG/M 4 version of the integrated metagenome comparative analysis system.

Markowitz VM, Chen IM, Chu K, Szeto E, Palaniappan K, Pillay M, Ratner A, Huang J, Pagani I, Tringe S, Huntemann M, Billis K, Varghese N, Tennessen K, Mavromatis K, Pati A, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2014 Jan;42(Database issue):D568-73. doi: 10.1093/nar/gkt919. Epub 2013 Oct 16.

7.

The integrated microbial genomes (IMG) system.

Markowitz VM, Korzeniewski F, Palaniappan K, Szeto E, Werner G, Padki A, Zhao X, Dubchak I, Hugenholtz P, Anderson I, Lykidis A, Mavromatis K, Ivanova N, Kyrpides NC.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D344-8.

8.

IMG/M: a data management and analysis system for metagenomes.

Markowitz VM, Ivanova NN, Szeto E, Palaniappan K, Chu K, Dalevi D, Chen IM, Grechkin Y, Dubchak I, Anderson I, Lykidis A, Mavromatis K, Hugenholtz P, Kyrpides NC.

Nucleic Acids Res. 2008 Jan;36(Database issue):D534-8. Epub 2007 Oct 11.

9.

IMG/M-HMP: a metagenome comparative analysis system for the Human Microbiome Project.

Markowitz VM, Chen IM, Chu K, Szeto E, Palaniappan K, Jacob B, Ratner A, Liolios K, Pagani I, Huntemann M, Mavromatis K, Ivanova NN, Kyrpides NC.

PLoS One. 2012;7(7):e40151. doi: 10.1371/journal.pone.0040151. Epub 2012 Jul 5.

10.

Comparative genome analysis in the integrated microbial genomes (IMG) system.

Markowitz VM, Kyrpides NC.

Methods Mol Biol. 2007;395:35-56.

PMID:
17993666
11.

Gene context analysis in the Integrated Microbial Genomes (IMG) data management system.

Mavromatis K, Chu K, Ivanova N, Hooper SD, Markowitz VM, Kyrpides NC.

PLoS One. 2009 Nov 24;4(11):e7979. doi: 10.1371/journal.pone.0007979.

12.

IMG ER: a system for microbial genome annotation expert review and curation.

Markowitz VM, Mavromatis K, Ivanova NN, Chen IM, Chu K, Kyrpides NC.

Bioinformatics. 2009 Sep 1;25(17):2271-8. doi: 10.1093/bioinformatics/btp393. Epub 2009 Jun 27.

PMID:
19561336
13.

Improving microbial genome annotations in an integrated database context.

Chen IM, Markowitz VM, Chu K, Anderson I, Mavromatis K, Kyrpides NC, Ivanova NN.

PLoS One. 2013;8(2):e54859. doi: 10.1371/journal.pone.0054859. Epub 2013 Feb 12.

14.

IMG/M: integrated genome and metagenome comparative data analysis system.

Chen IA, Markowitz VM, Chu K, Palaniappan K, Szeto E, Pillay M, Ratner A, Huang J, Andersen E, Huntemann M, Varghese N, Hadjithomas M, Tennessen K, Nielsen T, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2017 Jan 4;45(D1):D507-D516. doi: 10.1093/nar/gkw929. Epub 2016 Oct 13.

15.

The integrated microbial genome resource of analysis.

Checcucci A, Mengoni A.

Methods Mol Biol. 2015;1231:289-95. doi: 10.1007/978-1-4939-1720-4_18.

PMID:
25343872
16.

An experimental metagenome data management and analysis system.

Markowitz VM, Ivanova N, Palaniappan K, Szeto E, Korzeniewski F, Lykidis A, Anderson I, Mavromatis K, Kunin V, Garcia Martin H, Dubchak I, Hugenholtz P, Kyrpides NC.

Bioinformatics. 2006 Jul 15;22(14):e359-67. Erratum in: Bioinformatics. 2006 Oct 15;22(20):2580. Mavrommatis, Konstantinos [corrected to Mavromatis, Konstantinos].

PMID:
16873494
17.

The DOE-JGI Standard Operating Procedure for the Annotations of Microbial Genomes.

Mavromatis K, Ivanova NN, Chen IM, Szeto E, Markowitz VM, Kyrpides NC.

Stand Genomic Sci. 2009 Jul 20;1(1):63-7. doi: 10.4056/sigs.632.

18.

MicroScope--an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data.

Vallenet D, Belda E, Calteau A, Cruveiller S, Engelen S, Lajus A, Le Fèvre F, Longin C, Mornico D, Roche D, Rouy Z, Salvignol G, Scarpelli C, Thil Smith AA, Weiman M, Médigue C.

Nucleic Acids Res. 2013 Jan;41(Database issue):D636-47. doi: 10.1093/nar/gks1194. Epub 2012 Nov 27.

19.

Supporting community annotation and user collaboration in the integrated microbial genomes (IMG) system.

Chen IM, Markowitz VM, Palaniappan K, Szeto E, Chu K, Huang J, Ratner A, Pillay M, Hadjithomas M, Huntemann M, Mikhailova N, Ovchinnikova G, Ivanova NN, Kyrpides NC.

BMC Genomics. 2016 Apr 26;17:307. doi: 10.1186/s12864-016-2629-y.

20.

IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses.

Paez-Espino D, Chen IA, Palaniappan K, Ratner A, Chu K, Szeto E, Pillay M, Huang J, Markowitz VM, Nielsen T, Huntemann M, K Reddy TB, Pavlopoulos GA, Sullivan MB, Campbell BJ, Chen F, McMahon K, Hallam SJ, Denef V, Cavicchioli R, Caffrey SM, Streit WR, Webster J, Handley KM, Salekdeh GH, Tsesmetzis N, Setubal JC, Pope PB, Liu WT, Rivers AR, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2017 Jan 4;45(D1):D457-D465. doi: 10.1093/nar/gkw1030. Epub 2016 Oct 30.

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