Rintact: enabling computational analysis of molecular interaction data from the IntAct repository.
Bioinformatics
; 24(8): 1100-1, 2008 Apr 15.
Article
in En
| MEDLINE
| ID: mdl-17989096
ABSTRACT
MOTIVATION The IntAct repository is one of the largest and most widely used databases for the curation and storage of molecular interaction data. These datasets need to be analyzed by computational methods. Software packages in the statistical environment R provide powerful tools for conducting such analyses. RESULTS:
We introduce Rintact, a Bioconductor package that allows users to transform PSI-MI XML2.5 interaction data files from IntAct into R graph objects. On these, they can use methods from R and Bioconductor for a variety of tasks determining cohesive subgraphs, computing summary statistics, fitting mathematical models to the data or rendering graphical layouts. Rintact provides a programmatic interface to the IntAct repository and allows the use of the analytic methods provided by R and Bioconductor.AVAILABILITY:
Rintact is freely available at http//bioconductor.org
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Collection:
01-internacional
Database:
MEDLINE
Main subject:
Programming Languages
/
User-Computer Interface
/
Software
/
Information Storage and Retrieval
/
Protein Interaction Mapping
/
Databases, Protein
Language:
En
Journal:
Bioinformatics
Journal subject:
INFORMATICA MEDICA
Year:
2008
Document type:
Article
Affiliation country: