Advanced Tree-Based Kernels for Protein Classification. - Elisa Cilia; Alessandro Moschitti (AI*IA, 2007)

Predicting Structural and Functional Sites in Proteins by Searching for Maximum-weight Cliques. - Franco Mascia; Elisa Cilia; Mauro Brunato; Andrea Passerini (AAAI, 2010)

Automatic prediction of catalytic residues by modeling residue structural neighborhood. - Elisa Cilia; Andrea Passerini (BMC Bioinform., 2010)

Statistical and Relational Learning for Understanding Enzyme Function. - Elisa Cilia (2010)

Relational Feature Mining with Hierarchical Multitask kFOIL. - Elisa Cilia; Niels Landwehr; Andrea Passerini (Fundam. Informaticae, 2011)

Predicting virus mutations through relational learning. - Elisa Cilia; Stefano Teso; Sergio Ammendola; Tom Lenaerts; Andrea Passerini (AIMM, 2012)

Argot2: a large scale function prediction tool relying on semantic similarity of weighted Gene Ontology terms. - Marco Falda; Stefano Toppo; Alessandro Pescarolo; Enrico Lavezzo; Barbara Di Camillo; Andrea Facchinetti; Elisa Cilia; Riccardo Velasco; Paolo Fontana (BMC Bioinform., 2012)

Accurate Prediction of the Dynamical Changes within the Second PDZ Domain of PTP1e. - Elisa Cilia; Geerten W. Vuister; Tom Lenaerts (PLoS Comput. Biol., 2012)

Predicting virus mutations through statistical relational learning. - Elisa Cilia; Stefano Teso; Sergio Ammendola; Tom Lenaerts; Andrea Passerini (BMC Bioinform., 2014)

The DynaMine webserver: predicting protein dynamics from sequence. - Elisa Cilia; Rita Pancsa; Peter Tompa; Tom Lenaerts; Wim F. Vranken (Nucleic Acids Res., 2014)

NAR Breakthrough Article: DIDA: A curated and annotated digenic diseases database. - Andrea M. Gazzo; Dorien Daneels; Elisa Cilia; Maryse Bonduelle; Marc Abramowicz; Sonia Van Dooren; Guillaume Smits; Tom Lenaerts (Nucleic Acids Res., 2016)

From Binding-Induced Dynamic Effects in SH3 Structures to Evolutionary Conserved Sectors. - Ana Zafra Ruano; Elisa Cilia; José R. Couceiro; Javier Ruiz Sanz; Joost Schymkowitz; Frederic Rousseau 001; Irene Luque; Tom Lenaerts (PLoS Comput. Biol., 2016)