Improving domain-based protein interaction prediction using biologically-significant negative dataset

Authors:
Xiao-Li Li;Soon-Heng Tan;See-Kiong Ng
Affiliations:
Knowledge Discovery Department, Institute For Infocomm Research, 21 Heng Mui Keng Terrace, 119613, Singapore.;Knowledge Discovery Department, Institute For Infocomm Research, 21 Heng Mui Keng Terrace, 119613, Singapore.;Knowledge Discovery Department, Institute For Infocomm Research, 21 Heng Mui Keng Terrace, 119613, Singapore
Venue:
International Journal of Data Mining and Bioinformatics
Year:
2006

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Abstract

We propose a domain-based classification method to predict protein-protein interactions using probabilities of putative interacting domain pairs derived from both experimentally-determined interacting protein pairs and carefully-chosen non-interacting protein pairs. Multi-species comparative results for protein interaction prediction show that such careful generation of biologically-meaningful negative training data can improve classification performance.