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

被引：156

作者：

Markowitz, Victor M. ^{[1
]}

Szeto, Ernest ^{[1
]}

Palaniappan, Krishna ^{[1
]}

Grechkin, Yuri ^{[1
]}

Chu, Ken ^{[1
]}

Chen, I-Min A. ^{[1
]}

Dubchak, Inna ^{[2
]}

Anderson, Iain ^{[3
]}

Lykidis, Athanasios ^{[3
]}

Mavromatis, Konstantinos ^{[3
]}

Ivanova, Natalia N. ^{[3
]}

Kyrpides, Nikos C. ^{[3
]}

机构：

[1] Univ Calif Berkeley, Lawrence Berkeley Lab, Biol Data Management & Technol Ctr, Berkeley, CA 94720 USA

[2] Univ Calif Berkeley, Lawrence Berkeley Lab, Genom Div, Berkeley, CA 94720 USA

[3] Joint Genome Inst, Dept Energy, Genome Biol Program, Walnut Creek, CA USA

来源：

NUCLEIC ACIDS RESEARCH | 2008年 / 36卷

关键词：

D O I：

10.1093/nar/gkm846

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The integrated microbial genomes (IMG) system is a data management, analysis and annotation platform for all publicly available genomes. IMG contains both draft and complete JGI microbial genomes integrated with all other publicly available genomes from all three domains of life, together with a large number of plasmids and viruses. IMG provides tools and viewers for analyzing and annotating genomes, genes and functions, individually or in a comparative context. Since its first release in 2005, IMGs data content and analytical capabilities have been constantly expanded through quarterly releases. IMG is provided by the DOE-Joint Genome Institute (JGI) and is available from http://img.jgi.doe.gov.

引用

页码：D528 / D533

页数：6

共 22 条

[1] The MicrobesOnline web site for comparative genomics
Alm, EJ
Huang, KH
Price, MN
Koche, RP
Keller, K
Dubchak, IL
Arkin, AP
[J]. GENOME RESEARCH, 2005, 15 (07) : 1015 - 1022
[2] The ENZYME database in 2000
Bairoch, A
[J]. NUCLEIC ACIDS RESEARCH, 2000, 28 (01) : 304 - 305
[3] The universal protein resource (UniProt)
Bairoch, Amos
Bougueleret, Lydie
Altairac, Severine
Amendolia, Valeria
Auchincloss, Andrea
Puy, Ghislaine Argoud
Axelsen, Kristian
Baratin, Delphine
Blatter, Marie-Claude
Boeckmann, Brigitte
Bollondi, Laurent
Boutet, Emmanuel
Quintaje, Silvia Braconi
Breuza, Lionel
Bridge, Alan
deCastro, Edouard
Coral, Danielle
Coudert, Elisabeth
Cusin, Isabelle
Dobrokhotov, Pavel
Dornevil, Dolnide
Duvaud, Severine
Estreicher, Anne
Famiglietti, Livia
Feuermann, Marc
Gehant, Sebastian
Farriol-Mathis, Nathalie
Ferro, Serenella
Gasteiger, Elisabeth
Gateau, Alain
Gerritsen, Vivienne
Gos, Arnaud
Gruaz-Gumowski, Nadine
Hinz, Ursula
Hulo, Chantal
Hulo, Nicolas
Ioannidis, Vassilios
Ivanyi, Ivan
James, Janet
Jain, Eric
Jimenez, Silvia
Jungo, Florence
Junker, Vivien
Keller, Guillaume
Lachaize, Corinne
Lane-Guermonprez, Lydie
Langendijk-Genevaux, Petra
Lara, Vicente
Lemercier, Philippe
Le Saux, Virginie
[J]. NUCLEIC ACIDS RESEARCH, 2007, 35 : D193 - D197
[4] Bateman A, 2002, NUCLEIC ACIDS RES, V30, P276, DOI [10.1093/nar/gkr1065, 10.1093/nar/gkp985, 10.1093/nar/gkh121]
[5] CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats
Bland, Charles
Ramsey, Teresa L.
Sabree, Fareedah
Lowe, Micheal
Brown, Kyndall
Kyrpides, Nikos C.
Hugenholtz, Philip
[J]. BMC BIOINFORMATICS, 2007, 8 (1)
[6] MetaCyc: a multiorganism database of metabolic pathways and enzymes
Caspi, Ron
Foerster, Hartmut
Fulcher, Carol A.
Hopkinson, Rebecca
Ingraham, John
Kaipa, Pallavi
Krummenacker, Markus
Paley, Suzanne
Pick, John
Rhee, Seung Y.
Tissier, Christophe
Zhang, Peifen
Karp, Peter D.
[J]. NUCLEIC ACIDS RESEARCH, 2006, 34 : D511 - D516
[7] Enzyme-specific profiles for genome annotation: PRIAM
Claudel-Renard, C
Chevalet, C
Faraut, T
Kahn, D
[J]. NUCLEIC ACIDS RESEARCH, 2003, 31 (22) : 6633 - 6639
[8] Locating proteins in the cell using TargetP, SignalP and related tools
Emanuelsson, Olof
Brunak, Soren
von Heijne, Gunnar
Nielsen, Henrik
[J]. NATURE PROTOCOLS, 2007, 2 (04) : 953 - 971
[9] VISTA: computational tools for comparative genomics
Frazer, KA
Pachter, L
Poliakov, A
Rubin, EM
Dubchak, I
[J]. NUCLEIC ACIDS RESEARCH, 2004, 32 : W273 - W279
[10] G. O. Consortium, 2004, Nucleic Acids Res, V32, pD258, DOI DOI 10.1093/NAR/GKH036

← 1 2 3 →