A neural network method to improve prediction of protein-protein interaction sites in heterocomplexes. - Piero Fariselli; Andrea Zauli; Ivan Rossi; Michele Finelli; Pier Luigi Martelli; Rita Casadio (NNSP, 2003)

MaxSubSeq: an algorithm for segment-length optimization. The case study of the transmembrane spanning segments. - Piero Fariselli; Michele Finelli; Davide Marchignoli; Pier Luigi Martelli; Ivan Rossi; Rita Casadio (Bioinform., 2003)

TRAMPLE: the transmembrane protein labelling environment. - Piero Fariselli; Michele Finelli; Ivan Rossi; Mauro Amico; Andrea Zauli; Pier Luigi Martelli; Rita Casadio (Nucleic Acids Res., 2005)

PONGO: a web server for multiple predictions of all-alpha transmembrane proteins. - Mauro Amico; Michele Finelli; Ivan Rossi; Andrea Zauli; Arne Elofsson; Håkan Viklund; Gunnar von Heijne; David Jones; Anders Krogh; Piero Fariselli; Pier Luigi Martelli; Rita Casadio (Nucleic Acids Res., 2006)

High Throughput Protein Similarity Searches in the LIBI Grid Problem Solving Environment. - Maria Mirto; Ivan Rossi; Italo Epicoco; Sandro Fiore; Piero Fariselli; Rita Casadio; Giovanni Aloisio (ISPA Workshops, 2007)

The WWWH of remote homolog detection: The state of the art. - Piero Fariselli; Ivan Rossi; Emidio Capriotti; Rita Casadio (Briefings Bioinform., 2007)

A three-state prediction of single point mutations on protein stability changes. - Emidio Capriotti; Piero Fariselli; Ivan Rossi; Rita Casadio (BMC Bioinform., 2008)

Prediction of Protein-Protein Interacting Sites: How to Bridge Molecular Events to Large Scale Protein Interaction Networks. - Lisa Bartoli; Pier Luigi Martelli; Ivan Rossi; Piero Fariselli; Rita Casadio (CMSB, 2009)

ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing. - Pier Luigi Martelli; Mattia D'Antonio; Paola Bonizzoni; Tiziana Castrignanò; Anna Maria D'Erchia; Paolo D'Onorio De Meo; Piero Fariselli; Michele Finelli; Flavio Licciulli; Marina Mangiulli; Flavio Mignone; Giulio Pavesi; et al. (Nucleic Acids Res., 2011)

BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences. - Damiano Piovesan; Pier Luigi Martelli; Piero Fariselli; Andrea Zauli; Ivan Rossi; Rita Casadio (Nucleic Acids Res., 2011)

How to inherit statistically validated annotation within BAR+ protein clusters. - Damiano Piovesan; Pier Luigi Martelli; Piero Fariselli; Giuseppe Profiti; Andrea Zauli; Ivan Rossi; Rita Casadio (BMC Bioinform., 2013)

Fido-SNP: the first webserver for scoring the impact of single nucleotide variants in the dog genome. - Emidio Capriotti; Ludovica Montanucci; Giuseppe Profiti; Ivan Rossi; Diana Giannuzzi; Luca Aresu; Piero Fariselli (Nucleic Acids Res., 2019)

Multiple Sclerosis Survival Prediction Results from DSM-COMPBIO UNITO. - Ivan Rossi; Giovanni Birolo; Piero Fariselli (CLEF (Working Notes), 2023)

SYNDSURV: A simple framework for survival analysis with data distributed across multiple institutions. - Cesare Rollo; Corrado Pancotti; Giovanni Birolo; Ivan Rossi; Tiziana Sanavia; Piero Fariselli (Comput. Biol. Medicine, 2024)

Polyrate 2023: A computer program for the calculation of chemical reaction rates for polyatomics. New version announcement. - Rubén Meana-Pañeda; Jingjing Zheng; Junwei Lucas Bao; Shuxia Zhang; Benjamin J. Lynch; José C. Corchado; Yao-Yuan Chuang; Patton L. Fast; Wei-Ping Hu; Yi-Ping Liu; Gillian C. Lynch; Kiet A. Nguyen; et al. (Comput. Phys. Commun., 2024)

Beyond Cox models: Assessing the performance of machine-learning methods in non-proportional hazards and non-linear survival analysis. - Giovanni Birolo; Ivan Rossi; Flavio Sartori; Cesare Rollo; Piero Fariselli; Tiziana Sanavia (Comput. Biol. Medicine, 2025)

SurvHive: a package to consistently access multiple survival-analysis packages. - Giovanni Birolo; Ivan Rossi; Flavio Sartori; Cesare Rollo; Tiziana Sanavia; Piero Fariselli (CoRR, 2025)

JanusDDG: A Thermodynamics-Compliant Model for Sequence-Based Protein Stability via Two-Fronts Multi-Head Attention. - Guido Barducci; Ivan Rossi; Francesco Codicè; Cesare Rollo; Valeria Repetto; Corrado Pancotti; Virginia Iannibelli; Tiziana Sanavia; Piero Fariselli (CoRR, 2025)

Mass Balance Approximation of Unfolding Improves Potential-Like Methods for Protein Stability Predictions. - Ivan Rossi; Guido Barducci; Tiziana Sanavia; Paola Turina; Emidio Capriotti; Piero Fariselli (CoRR, 2025)