Skip to main content

Advertisement

Table 1 Data sources used to predict protein functional interactions

From: A human functional protein interaction network and its application to cancer data analysis

Data source Proteins SwissProt proteins (coverage) Interactions Reference
Human PPIs 10,287 10,029 (49%) 53,743 [4547]
Fly PPIs 13,383 4,088 (20%) 939,639 (26,346a) [45]
Worm PPIs 5,223 1,477 (7%) 122,192 (8,161a) [45]
Yeast PPIs 5,646 1,530 (8%) 1,900,980 (167,574a) [45]
Domain interaction 60,569 15,218 (75%) NA [52]
Lee's Gene Expression 8,250 7,647 (38%) 206,117 [49]
Prieto's Gene Expression 3,024 2,901 (14%) 13,441 [50]
GO BP sharing 14,197 14,197 (70%) NA [51]
PPIs from GeneWays 5,252 5,252(26%) 51,048 [53]
  1. To calculate the coverage of SwissProt, we used 20,332, the total identifier number in SwissProt (UniProtKB/Swiss-Prot Release 56.9, 3 March 2009), as the denominator. The numbers of interactions from three model organisms have been mapped to human proteins based on Ensembl Compara [48] (see text for details). aNumbers of PPIs in the original species. BP, biological process.