Enhancing the prediction of protein pairings between interacting families using orthology information

Background: It has repeatedly been shown that interacting protein families tend to have similar phylogenetic trees. These similarities can be used to predicting the mapping between two families of interacting proteins (i.e. which proteins from one family interact with which members of the other). The correct mapping will be that which maximizes the similarity between the trees. The two families may eventually comprise orthologs and paralogs, if members of the two families are present in more than one organism. This fact can be exploited to restrict the possible mappings, simply by impeding links between proteins of different organisms. We present here an algorithm to predict the mapping between families of interacting proteins which is able to incorporate information regarding orthologues, or any other assignment of proteins to "classes" that may restrict possible mappings. Results: For the first time in methods for predicting mappings, we have tested this new approach on a ...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: José M. G. Izarzugaza, David de Juan, Carles Pons, Florencio Pazos, Alfonso Valencia
• Keywords: BMCBI 2008, Possible Mappings, Proteins, Similar Phylogenetic Trees