Correlating overrepresented upstream motifs to gene expression: a computational approach to regulatory element discovery in eukaryotes. - Michele Caselle; Ferdinando Di Cunto; Paolo Provero (BMC Bioinform., 2002)

Computational identification of transcription factor binding sites by functional analysis of sets of genes sharing overrep-resented upstream motifs. - Davide Corà; Ferdinando Di Cunto; Paolo Provero; Lorenzo Silengo; Michele Caselle (BMC Bioinform., 2004)

CLOE: Identification of putative functional relationships among genes by comparison of expression profiles between two species. - Maurizio Pellegrino; Paolo Provero; Lorenzo Silengo; Ferdinando Di Cunto (BMC Bioinform., 2004)

Ab initio identification of putative human transcription factor binding sites by comparative genomics. - Davide Corà; Carl Herrmann; Christoph Dieterich; Ferdinando Di Cunto; Paolo Provero; Michele Caselle (BMC Bioinform., 2005)

Identification of candidate regulatory sequences in mammalian 3' UTRs by statistical analysis of oligonucleotide distributions. - Davide Corà; Ferdinando Di Cunto; Michele Caselle; Paolo Provero (BMC Bioinform., 2007)

Prediction of Human Disease Genes by Human-Mouse Conserved Coexpression Analysis. - Ugo Ala; Rosario Michael Piro; Elena Grassi; Christian Damasco; Lorenzo Silengo; Martin Oti; Paolo Provero; Ferdinando Di Cunto (PLoS Comput. Biol., 2008)

Are Cells Really Operating at the Edge of Chaos? - A Case Study of Two Real-Life Regulatory Networks. - Christian Darabos; Mario Giacobini; Marco Tomassini; Paolo Provero; Ferdinando Di Cunto (ECAL (1), 2009)

Candidate gene prioritization based on spatially mapped gene expression: an application to XLMR. - Rosario Michael Piro; Ivan Molineris; Ugo Ala; Paolo Provero; Ferdinando Di Cunto (Bioinform., 2010)

A New Approach for the Identification of Processed Pseudogenes. - Ivan Molineris; Gabriele Sales; Federico Bianchi 007; Ferdinando Di Cunto; Michele Caselle (J. Comput. Biol., 2010)

Validating a Threshold-Based Boolean Model of Regulatory Networks on a Biological Organism. - Christian Darabos; Ferdinando Di Cunto; Marco Tomassini; Jason H. Moore; Paolo Provero; Mario Giacobini (EvoBio, 2011)

Automatic hippocampus localization in histological images using PSO-based deformable models. - Roberto Ugolotti; Pablo Mesejo; Stefano Cagnoni; Mario Giacobini; Ferdinando Di Cunto (GECCO (Companion), 2011)

Toward robust network based complex systems: from evolutionary cellular automata to biological models. - Christian Darabos; Marco Tomassini; Ferdinando Di Cunto; Paolo Provero; Jason H. Moore; Mario Giacobini (Intelligenza Artificiale, 2011)

Automatic segmentation of hippocampus in histological images of mouse brains using deformable models and random forest. - Pablo Mesejo; Roberto Ugolotti; Stefano Cagnoni; Ferdinando Di Cunto; Mario Giacobini (CBMS, 2012)

Disease-gene discovery by integration of 3D gene expression and transcription factor binding affinities. - Rosario M. Piro; Ivan Molineris; Ferdinando Di Cunto; Roland Eils; Rainer König (Bioinform., 2013)

Drug repositioning for orphan genetic diseases through Conserved Anticoexpressed Gene Clusters (CAGCs). - Ivan Molineris; Ugo Ala; Paolo Provero; Ferdinando Di Cunto (BMC Bioinform., 2013)

Automatic hippocampus localization in histological images using Differential Evolution-based deformable models. - Pablo Mesejo; Roberto Ugolotti; Ferdinando Di Cunto; Mario Giacobini; Stefano Cagnoni (Pattern Recognit. Lett., 2013)