CSIDOP - Cross- Species Interacting DOmain Patterns

CSIDOP Method Details

The basic idea of the CSIDOP method is to assign appropriate GO functional annotations to proteins according to the interaction pairs in diverse species having the shared domain patterns. We aim to find modular domains that likely possess similar functions.

In order to extract the true functional interacting domain patterns from the vast wealth of deposited protein-protein interaction (PPI) data, we have devised an algorithm to find groups of protein interaction pairs with similar functions and applied chi-square statistics to derive meaningful interacting domain patterns from these PPI groups. For each protein interaction pair in the reference dataset, we tried to identify its neighbors based on functional distances between their individual proteins. Finally, we derive the most representative interacting domain patterns from the group of functional similar PPI pairs. This is accomplished by identifying an interaction domain pattern that is uniquely conserved in the group of PPI pairs across different organisms and with the same or similar functions (i.e. in the same group).

For further details regarding the algorithm, please see our paper published in PLoS ONE.

Protein Function Assignment through Mining Cross-Species Protein-Protein Interactions