Genome Biology
Volume 6
Issue 5

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Research

Consolidating the set of known human protein-protein interactions in preparation for large-scale mapping of the human interactome

Arun K Ramani¹ , Razvan C Bunescu² , Raymond J Mooney² and Edward M Marcotte¹^,3

¹Center for Systems and Synthetic Biology and Institute for Cellular and Molecular Biology, University of Texas, Austin, TX 78712, USA

²Department of Computer Sciences, University of Texas, Austin, TX 78712, USA

³Department of Chemistry and Biochemistry, University of Texas, Austin, TX 78712, USA

author email corresponding author email

Genome Biology 2005, 6:R40doi:10.1186/gb-2005-6-5-r40


Published:	15 April 2005

Subject areas: Bioinformatics, Genome studies, Molecular biology, Methods

Additional File 1:

Training set of 200 Medline abstracts with all occurrences of protein names tagged

Format: GZ Size: 111KB Download file

Additional File 2:

Training set of 750 Medline abstracts with all occurrences of protein names tagged

Format: GZ Size: 434KB Download file

Additional File 3:

Dictionary of human protein names and synonyms indexed to LocusLink identifiers

Format: TXT Size: 2.9MB Download file

Additional File 4:

Final set of 31,609 protein interactions between 7,748 proteins derived from this analysis

Format: TXT Size: 943KB Download file

Additional File 5:

Final set of co-citation/Bayesian classifier-derived interactions with the PubMed identifiers of co-citing abstracts

Format: TXT Size: 812KB Download file

Additional File 6:

Benchmark training set of functional annotations

Format: TXT Size: 102KB Download file

Additional File 7:

Benchmark test set of functional annotations

Format: TXT Size: 102KB Download file

Additional File 8:

Benchmark set of physical interactions

Format: TXT Size: 248KB Download file

Additional File 9:

Discriminating word list used by the Bayesian classifier to estimate the likelihood of Medline abstracts to discuss protein interactions

Format: TXT Size: 2KB Download file