DIMA 3.0: Domain interaction map

Qibin Luo; Philipp Pagel; Baiba Vilne; Dmitrij Frishman

doi:10.1093/nar/gkq1200

DIMA 3.0: Domain interaction map

Qibin Luo, Philipp Pagel, Baiba Vilne, Dmitrij Frishman

Research output: Contribution to journal › Article › peer-review

39 Citations (Scopus)

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Abstract

Domain Interaction MAp (DIMA, available at http:// webclu.bio.wzw.tum.de/ dima) is a database of predicted and known interactions between protein domains. It integrates 5807 structurally known interactions imported from the iPfam and 3did databases and 46 900 domain interactions predicted by four computational methods: domain phylogenetic profiling, domain pair exclusion algorithm correlated mutations and domain interaction prediction in a discriminative way. Additionally predictions are filtered to exclude those domain pairs that are reported as non-interacting by the Negatome database. The DIMA Web site allows to calculate domain interaction networks either for a domain of interest or for entire organisms, and to explore them interactively using the Flash-based Cytoscape Web software.

Original language	English
Pages (from-to)	D724-D729
Number of pages	6
Journal	Nucleic Acids Research
Volume	39
Issue number	SUPPL. 1
DOIs	https://doi.org/10.1093/nar/gkq1200
Publication status	Published - Jan 2011
Externally published	Yes

Field of Science*

1.6 Biological sciences
2.2 Electrical engineering, Electronic engineering, Information engineering

Publication Type*

1.1. Scientific article indexed in Web of Science and/or Scopus database

Access to Document

10.1093/nar/gkq1200

DIMA 3.0_Domain Interaction MapFinal published version, 1.19 MB

Cite this

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title = "DIMA 3.0: Domain interaction map",

abstract = "Domain Interaction MAp (DIMA, available at http:// webclu.bio.wzw.tum.de/ dima) is a database of predicted and known interactions between protein domains. It integrates 5807 structurally known interactions imported from the iPfam and 3did databases and 46 900 domain interactions predicted by four computational methods: domain phylogenetic profiling, domain pair exclusion algorithm correlated mutations and domain interaction prediction in a discriminative way. Additionally predictions are filtered to exclude those domain pairs that are reported as non-interacting by the Negatome database. The DIMA Web site allows to calculate domain interaction networks either for a domain of interest or for entire organisms, and to explore them interactively using the Flash-based Cytoscape Web software.",

author = "Qibin Luo and Philipp Pagel and Baiba Vilne and Dmitrij Frishman",

note = "Funding Information: Q.L. is supported by a scholarship of the German Academic Exchange Service (DAAD). Funding for open access charge: Helmholtz Gesellschaft. Copyright: Copyright 2011 Elsevier B.V., All rights reserved.",

year = "2011",

month = jan,

doi = "10.1093/nar/gkq1200",

language = "English",

volume = "39",

pages = "D724--D729",

journal = "Nucleic Acids Research",

issn = "0305-1048",

publisher = "Oxford University Press",

number = "SUPPL. 1",

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T2 - Domain interaction map

AU - Luo, Qibin

AU - Pagel, Philipp

AU - Vilne, Baiba

AU - Frishman, Dmitrij

N1 - Funding Information: Q.L. is supported by a scholarship of the German Academic Exchange Service (DAAD). Funding for open access charge: Helmholtz Gesellschaft. Copyright: Copyright 2011 Elsevier B.V., All rights reserved.

PY - 2011/1

Y1 - 2011/1

N2 - Domain Interaction MAp (DIMA, available at http:// webclu.bio.wzw.tum.de/ dima) is a database of predicted and known interactions between protein domains. It integrates 5807 structurally known interactions imported from the iPfam and 3did databases and 46 900 domain interactions predicted by four computational methods: domain phylogenetic profiling, domain pair exclusion algorithm correlated mutations and domain interaction prediction in a discriminative way. Additionally predictions are filtered to exclude those domain pairs that are reported as non-interacting by the Negatome database. The DIMA Web site allows to calculate domain interaction networks either for a domain of interest or for entire organisms, and to explore them interactively using the Flash-based Cytoscape Web software.

AB - Domain Interaction MAp (DIMA, available at http:// webclu.bio.wzw.tum.de/ dima) is a database of predicted and known interactions between protein domains. It integrates 5807 structurally known interactions imported from the iPfam and 3did databases and 46 900 domain interactions predicted by four computational methods: domain phylogenetic profiling, domain pair exclusion algorithm correlated mutations and domain interaction prediction in a discriminative way. Additionally predictions are filtered to exclude those domain pairs that are reported as non-interacting by the Negatome database. The DIMA Web site allows to calculate domain interaction networks either for a domain of interest or for entire organisms, and to explore them interactively using the Flash-based Cytoscape Web software.

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DO - 10.1093/nar/gkq1200

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JO - Nucleic Acids Research

JF - Nucleic Acids Research

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ER -

DIMA 3.0: Domain interaction map

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