MPI-LIT: A literature-curated dataset of microbial binary protein-protein interactions

Bioinformatics

Volumn 24, Issue 22, 2008, Pages 2622-2627

  Rajagopala, Seesandra V ^a   Goll, Johannes ^a   Gowda, N D Deve ^b   Sunil, Kumar C ^b   Titz, Björn ^c   Mukherjee, Arnab ^a   Mary, Sharmila S ^b   Raviswaran, Naresh ^b   Poojari, Chetan S ^b   Ramachandra, Srinivas ^b   Shtivelband, Svetlana ^a   Blazie, Stephen M ^a   Hofmann, Julia ^a   Uetz, Peter ^a  

^a J CRAIG VENTER INSTITUTE   (United States)

^b Indgen Life Technologies   (India)

^c KARLSRUHE INSTITUTE OF TECHNOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN;

ARTICLE; CRYSTAL STRUCTURE; DNA REPLICATION; MPI LIT; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN DATABASE; PROTEIN FOLDING; PROTEIN PROTEIN INTERACTION;

BACTERIAL PROTEINS; COMPUTATIONAL BIOLOGY; DATABASES, PROTEIN; PROTEIN BINDING; PROTEIN INTERACTION MAPPING;

PROKARYOTA;

EID: 55749094206     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btn481     Document Type: Article

References (26)

1. Alexa,A. et al. (2006) Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. Bioinformatics, 22, 1600-1607.
2. Alfarano,C. et al. (2005) The biomolecular interaction network database and related tools 2005 update. Nucleic Acids Res., 33 Database issue), D418-D424.
3. Arifuzzaman,M. et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res., 16, 686-691.
4. Butland,G. et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature, 433, 531-537.
5. Chatr-aryamontri,A. et al. (2007) MINT: The molecular interaction database. Nucleic Acids Res., 35(Database issue), D572-D574.
6. Edwards,A.M. et al. (2002) Bridging structural biology and genomics: Assessing protein interaction data with known complexes. Trends Genet., 18, 529-536.
7. Fields,S. and Song,O. (1989) A novel genetic system to detect protein-protein interactions. Nature, 340, 245-246.
8. Goll,J. et al. (2008) MPIDB: The microbial protein interaction database. Bioinformatics, 24, 1743-1744.
9. Han,J-D.J. et al. (2004) Evidence for dynamically organized modularity in the yeast protein-protein interaction network. Nature 430, 88-93.
10. Kerrien,S. et al. (2007a) Broadening the horizon-level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol., 5, 44.
11. Kerrien,S. et al. (2007b) IntAct-open source resource for molecular interaction data. Nucleic Acids Res., 35(Database issue), D561-D565.
12. Leitner,F. and Valencia,A. (2008) A text-mining perspective on the requirements for electronically annotated abstracts. FEBS Lett., 582, 1178-1181.
13. Liu,H. et al. (2006) Biothesaurus: A web-based thesaurus of protein and gene names. Bioinformatics, 22, 103-105.
14. Parrish,J.R. et al. (2007) A proteome-wide protein interaction map for Campylobacter jejuni. Genome Biol., 8, R130.
15. Peri,S. et al. (2003) Development of human protein reference database as an initial platform for approaching systems biology in humans. Genome Res., 13, 2363-2371.
16. Peterson,J.D. et al. (2001) The comprehensive microbial resource. Nucleic Acids Res., 29, 123-125.
17. Rain,J.C. et al. (2001) The protein-protein interaction map of Helicobacter pylori. Nature, 409, 211-215.
18. Rajagopala,S.V. et al. (2007) The protein network of bacterial motility. Mol. Syst. Biol., 3, 128.
19. Reguly,T. et al. (2006) Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae. J. Biol., 5, 11.
20. Salwinski,L. et al. (2004) The database of interacting proteins: 2004 update. Nucleic Acids Res., 32(Database issue), D449-D451.
21. Sato,S. et al. (2007) A large-scale protein protein interaction analysis in Synechocystis sp. PCC6803. DNA Res., 14, 207-216.
22. Suthram,S. et al. (2006) A direct comparison of protein interaction confidence assignment schemes. BMC Bioinform., 7 360.
23. Titz,B. et al. (2008) The binary protein interactome of Treponema pallidum-the syphilis spirochete. PLoS ONE, 3, e2292.
24. UniProt-Consortium (2008) The universal protein resource (uniprot). Nucleic Acids Res., 36(Database issue), D190-D195.
25. von Mering, et al. (2007) STRING 7-recent developments in the integration and prediction of protein interactions. Nucleic Acids Res., 35(Database issue), D358-D362.
26. Yooseph,S. et al. (2007) The sorcerer II global ocean sampling expedition: Expanding the universe of protein families. PLoS Biol. 5, e16.