Interologs
ProCope contains a set of methods to calculate and score interologs.
The basic assumption for this type of interaction is that
homologs of interacting proteins have a high probability of being
interaction partners as well. These homology-derived potential
interactors are then called interologs. The methods implemented in
ProCope are taken from a publication by Yu et al., 2004.
To calculate interologs, a given protein interaction network and a
protein mapping (usually homology information) is used as input. The
protein mapping is represented as a directed network where each
directed edge represents one protein/protein mapping. Protein
interactions are mapped and the resulting transferred interactions
scored using the original BLAST evalues or pairwise alignment scores of
the homologs.
The GUI and command line of ProCope do not include
interolog calculation. Check out the JavaDocs of the procope.methods.interologs
package to find out how to access the methods programatically.