A more efficient search strategy for aging genes based on connectivity. - Luca Ferrarini; Luca Bertelli; Jacob D. Feala; Andrew D. McCulloch; Giovanni Paternostro (Bioinform., 2005)

A semi-automatic system for segmentation of cardiac M-mode images. - Luca Bertelli; Rita Cucchiara; Giovanni Paternostro; Andrea Prati 001 (Pattern Anal. Appl., 2006)

Search Algorithms as a Framework for the Optimization of Drug Combinations. - Diego Calzolari; Stefania Bruschi; Laurence Coquin; Jennifer Schofield; Jacob D. Feala; John C. Reed; Andrew D. McCulloch; Giovanni Paternostro (PLoS Comput. Biol., 2008)

Metabolism as means for hypoxia adaptation: metabolic profiling and flux balance analysis. - Jacob D. Feala; Laurence Coquin; Dan Zhou; Gabriel G. Haddad; Giovanni Paternostro; Andrew D. McCulloch (BMC Syst. Biol., 2009)

Prediction of kinase inhibitor response using activity profiling, in vitro screening, and elastic net regression. - Trish P. Tran; Edison Ong; Andrew P. Hodges; Giovanni Paternostro; Carlo Piermarocchi (BMC Syst. Biol., 2014)

A Scalable Method for Molecular Network Reconstruction Identifies Properties of Targets and Mutations in Acute Myeloid Leukemia. - Edison Ong; Anthony Szedlak; Yunyi Kang; Peyton Smith; Nicholas Smith; Madison McBride; Darren Finlay; Kristiina Vuori; James Mason; Edward D. Ball; Carlo Piermarocchi; Giovanni Paternostro (J. Comput. Biol., 2015)

Evolutionary and Topological Properties of Genes and Community Structures in Human Gene Regulatory Networks. - Anthony Szedlak; Nicholas Smith; Li Liu 035; Giovanni Paternostro; Carlo Piermarocchi (PLoS Comput. Biol., 2016)

Cell cycle time series gene expression data encoded as cyclic attractors in Hopfield systems. - Anthony Szedlak; Spencer Sims; Nicholas Smith; Giovanni Paternostro; Carlo Piermarocchi (PLoS Comput. Biol., 2017)

Modeling disease progression in Multiple Myeloma with Hopfield networks and single-cell RNA-seq. - Sergii Domanskyi; Alex Hakansson; Giovanni Paternostro; Carlo Piermarocchi (BIBM, 2019)

Polled Digital Cell Sorter (p-DCS): Automatic identification of hematological cell types from single cell RNA-sequencing clusters. - Sergii Domanskyi; Anthony Szedlak; Nathaniel T Hawkins; Jiayin Wang; Giovanni Paternostro; Carlo Piermarocchi (BMC Bioinform., 2019)