A power law global error model for the identification of differentially expressed genes in microarray data. - Norman Pavelka; Mattia Pelizzola; Caterina Vizzardelli; Monica Capozzoli; Andrea Splendiani; Francesca Granucci; Paola Ricciardi-Castagnoli (BMC Bioinform., 2004)

AMDA: an R package for the automated microarray data analysis. - Mattia Pelizzola; Norman Pavelka; Maria Foti; Paola Ricciardi-Castagnoli (BMC Bioinform., 2006)

The Genopolis Microarray Database. - Andrea Splendiani; Marco Brandizi; Gael Even; Ottavio Beretta; Norman Pavelka; Mattia Pelizzola; Manuel Mayhaus; Maria Foti; Giancarlo Mauri; Paola Ricciardi-Castagnoli (BMC Bioinform., 2007)

INSPEcT: a computational tool to infer mRNA synthesis, processing and degradation dynamics from RNA- and 4sU-seq time course experiments. - Stefano de Pretis; Theresia Kress; Marco J. Morelli; Giorgio E. M. Melloni; Laura Riva; Bruno Amati; Mattia Pelizzola (Bioinform., 2015)

methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data. - Kamal Kishore; Stefano de Pretis; Ryan Lister; Marco J. Morelli; Valerio Bianchi; Bruno Amati; Joseph R. Ecker; Mattia Pelizzola (BMC Bioinform., 2015)

LowMACA: exploiting protein family analysis for the identification of rare driver mutations in cancer. - Giorgio E. M. Melloni; Stefano de Pretis; Laura Riva; Mattia Pelizzola; Arnaud Céol; Jole Costanza; Heiko Müller 003; Luca Zammataro (BMC Bioinform., 2016)

Ontology-based annotations and semantic relations in large-scale (epi)genomics data. - Eugenia Galeota; Mattia Pelizzola (Briefings Bioinform., 2017)

Dynamics of transcriptional and post-transcriptional regulation. - Mattia Furlan; Stefano de Pretis; Mattia Pelizzola (Briefings Bioinform., 2021)

Identification, semantic annotation and comparison of combinations of functional elements in multiple biological conditions. - Michele Leone; Eugenia Galeota; Marco Masseroli; Mattia Pelizzola (Bioinform., 2022)

Benchmarking of computational methods for m6A profiling with Nanopore direct RNA sequencing. - Simone Maestri; Mattia Furlan; Logan Mulroney; Lucia Coscujuela Tarrero; Camilla Ugolini; Fabio Dalla Pozza; Tommaso Leonardi; Ewan Birney; Francesco Nicassio; Mattia Pelizzola (Briefings Bioinform., 2024)