An Investigation on Genomic Repeats. - Giuditta Franco; Alessio Milanese (CiE, 2013)

S-BLOSUM: Classification of 2D Shapes with Biological Sequence Alignment. - Pietro Lovato; Alessio Milanese; Cesare Centomo; Alejandro Giorgetti; Manuele Bicego (ICPR, 2014)

A genome analysis based on repeat sharing gene networks. - Alberto Castellini; Giuditta Franco; Alessio Milanese (Nat. Comput., 2015)

proGenomes2: an improved database for accurate and consistent habitat, taxonomic and functional annotations of prokaryotic genomes. - Daniel R. Mende; Ivica Letunic; Oleksandr M. Maistrenko; Thomas S. B. Schmidt; Alessio Milanese; Lucas Paoli; Ana Hernández-Plaza; Askarbek N. Orakov; Sofia K. Forslund; Shinichi Sunagawa; Georg Zeller; Jaime Huerta-Cepas; et al. (Nucleic Acids Res., 2020)

proGenomes3: approaching one million accurately and consistently annotated high-quality prokaryotic genomes. - Anthony Fullam; Ivica Letunic; Thomas S. B. Schmidt; Quinten R. Ducarmon; Nicolai Karcher; Supriya Khedkar; Michael Kuhn 004; Martin Larralde; Oleksandr M. Maistrenko; Lukas Malfertheiner; Alessio Milanese; João F. Matias Rodrigues; et al. (Nucleic Acids Res., 2023)