Alignment of Protein Interaction Networks

MaWISh: Pairwise Alignment of Protein Interaction Networks

You can download the source code here.

Results on alignment of PPI networks for four eukaryotic species yeast (4932), nematode (6239), fruit fly (7227), and human (9606):

Conserved subgraphs identified by MaWISh by considering only direct interactions.
Conserved subgraphs identified by MaWISh by considering one direct interaction in one organism, and one direct or indirect interaction (through one protein) in the other.

Each file is named using the taxonomy IDs of the organisms being compared.