Protein function prediction using sequence motifs: A research proposal

Protein function prediction, i.e. classification of protein sequences according to their biological function is an important task in bioinformatics. We propose a study of function prediction that uses protein sequence motifs as features; the result will be a system with state-of-the-art performance in function prediction, that provides interpretable results that can help in providing biological insight on the relationships between different classes of proteins. As a proof of concept we will focus on enzymes, which have a well developed system of classification, namely the Enzyme Commission (EC) numbering system.