This query provided a set of interactions for a subset of 249 proteins and only protein interactions between human proteins were used, excluding interaction data with viral proteins.
Only physical interactions between human proteins were used.
This cut-off resulted in a total of 46,579 PPIs, with 37,407 being between human proteins, 6,394 between human and microbial proteins, and 2,778 between microbial proteins.
Identifying the associations between human protein complexes and multiple disorders is essential for understanding disease mechanism and is also important to assist drug developers for the development of new diagnostics and therapeutics.
As for phosphorylation events between kinases and other proteins we found 5,462 interactions between 1,707 human proteins utilizing networKIN [28], [29] and phosphoELM database [30].
We obtained 3,073 PPIs between 1,748 human proteins and 943 B. anthracis proteins, 1,383 PPIs between 999 human proteins and 349 F. tularensis proteins, and 4,059 PPIs between 2,108 human proteins and 1,218 Y. pestis proteins.
Collecting pairwise protein interactions in H. sapiens from public databases and accounting for phosphorylation events between kinases and other proteins, we assembled a network of 23,752 interactions between 4,075 human proteins that are expressed in the human host cell.
Interestingly, we also identified a total of 48 inter cross-links between interacting human proteins.
Table 4 shows the overlap between predictions for human proteins inferred from different species pairs.
Pathway conservation was measured in three different categories: conservation between rice and human proteins, conservation between Arabidopsis and human proteins and conservation between Arabidopsis and rice proteins.
