Using multi-data hidden Markov models trained on local neighborhoods of protein structure to predict residue-residue contacts. - Patrik Björkholm; Pawel Daniluk; Andriy Kryshtafovych; Krzysztof Fidelis; Robin Andersson; Torgeir R. Hvidsten (Bioinform., 2009)

Comparative analysis and unification of domain-domain interaction networks. - Patrik Björkholm; Erik L. L. Sonnhammer (Bioinform., 2009)