Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 103

1.

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.

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.

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.

4.

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.

5.

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.

6.

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.

7.

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

Markowitz VM, Kyrpides NC.

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

PMID:
17993666
8.

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.

9.

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.

10.

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
11.

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.

12.

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.

13.

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.

14.

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.

15.

High-throughput comparison, functional annotation, and metabolic modeling of plant genomes using the PlantSEED resource.

Seaver SM, Gerdes S, Frelin O, Lerma-Ortiz C, Bradbury LM, Zallot R, Hasnain G, Niehaus TD, El Yacoubi B, Pasternak S, Olson R, Pusch G, Overbeek R, Stevens R, de Crécy-Lagard V, Ware D, Hanson AD, Henry CS.

Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9645-50. doi: 10.1073/pnas.1401329111. Epub 2014 Jun 9.

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.

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.

18.

CycADS: an annotation database system to ease the development and update of BioCyc databases.

Vellozo AF, Véron AS, Baa-Puyoulet P, Huerta-Cepas J, Cottret L, Febvay G, Calevro F, Rahbé Y, Douglas AE, Gabaldón T, Sagot MF, Charles H, Colella S.

Database (Oxford). 2011 Apr 7;2011:bar008. doi: 10.1093/database/bar008. Print 2011.

19.

MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes.

Vallenet D, Calteau A, Cruveiller S, Gachet M, Lajus A, Josso A, Mercier J, Renaux A, Rollin J, Rouy Z, Roche D, Scarpelli C, Médigue C.

Nucleic Acids Res. 2017 Jan 4;45(D1):D517-D528. doi: 10.1093/nar/gkw1101. Epub 2016 Nov 29.

20.

IMG-ABC: A Knowledge Base To Fuel Discovery of Biosynthetic Gene Clusters and Novel Secondary Metabolites.

Hadjithomas M, Chen IM, Chu K, Ratner A, Palaniappan K, Szeto E, Huang J, Reddy TB, Cimermančič P, Fischbach MA, Ivanova NN, Markowitz VM, Kyrpides NC, Pati A.

MBio. 2015 Jul 14;6(4):e00932. doi: 10.1128/mBio.00932-15.

Supplemental Content

Support Center