Pubblicazioni di Farina Lorenzo

2024

Farina Lorenzo

AI will not give us precision medicine. ANNALI DELL'ISTITUTO SUPERIORE DI SANITÀ 2024: 8-13

Farina Lorenzo

Pazienti fatti a pezzi. RECENTI PROGRESSI IN MEDICINA 2024: 170-174

Filetti Marco, Petti Manuela, Farina Lorenzo

Precision medicine: Beyond AI. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE UPDATE 2024: -

2023

Botticelli Andrea, Cirillo Alessio, Pomati Giulia, Cortesi Enrico, Rossi Ernesto, Schinzari Giovanni, Tortora Giampaolo, Tomao Silverio, Fiscon Giulia, Farina Lorenzo, Scagnoli Simone, Pisegna Simona, Ciurluini Fabio, Chiavassa Antonella, Amirhassankhani Sasan, Ceccarelli Fulvia, Conti Fabrizio, Di Filippo Alessandra, Zizzari Ilaria Grazia, Napoletano Chiara, Rughetti Aurelia, Nuti Marianna, Mezi Silvia, Marchetti Paolo

Immune-related toxicity and soluble profile in patients affected by solid tumors: a network approach. CANCER IMMUNOLOGY, IMMUNOTHERAPY 2023: -

Filetti M., Petti M., Farina L.

La medicina di precisione come opera d’arte collettiva. RECENTI PROGRESSI IN MEDICINA 2023: 479-482

Petti Manuela, Alfano Caterina, Farina Lorenzo

Molecular network analysis of hormonal contraceptives side effects via database integration. INFORMATICS IN MEDICINE UNLOCKED 2023: 101163-

Mascolo Davide, Farina Lorenzo, Petti Manuela

Multi-layer network modelling of genomic and transcriptomic data to investigate the response to checkpoint inhibitors in NSCLC. 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2023: 2825-2830

Petti Manuela, Farina Lorenzo

Network medicine for patients' stratification: From single‐layer to multi‐omics. WIRES MECHANISMS OF DISEASE 2023: e1623-

Alfano C., Farina L., Petti M.

Network-based integration of clinical, imaging and molecular biomarkers of dementia. Eighth National Congress of Bioengineering – Proceedings 2023: -

Alfano Caterina, Farina Lorenzo, Petti Manuela

Networks as Biomarkers: Uses and Purposes. GENES 2023: 429-

Benvenuti L, Farina L

Positive Dynamical Systems: New Applications, Old Problems. INTERNATIONAL JOURNAL OF CONTROL, AUTOMATION, AND SYSTEMS 2023: 837-844

Alfano Caterina, Farina Lorenzo, Petti Manuela

Stratification of metastatic melanoma patients based on mutational signatures. 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2023: 2798-2802

Farina L.

Systems Precision Medicine: Putting the Pieces Back Together. SYSTEMS 2023: 367-

2022

Fiscon Giulia, Conte Federica, Farina Lorenzo, Paci Paola

A Comparison of Network-Based Methods for Drug Repurposing along with an Application to Human Complex Diseases. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 2022: 1-15

Paci P., Fiscon G., Conte F., Wang R. -S., Handy D. E., Farina L., Loscalzo J.

Comprehensive network medicine-based drug repositioning via integration of therapeutic efficacy and side effects. NPJ SYSTEMS BIOLOGY AND APPLICATIONS 2022: 12-

Alfano Caterina, Farina Lorenzo, Petti Manuela

Differential Co-expression Network Analysis to Investigate Sexual Dimorphism in Colon Cancer. 2022 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2022: 1873-1878

Filetti M, Occhipinti M, Cirillo A, Scirocchi F, Ugolini A, Petti M, Giusti R, Lombardi P, Botticelli A, Lo Russo G, De Braud Fgm, Marchetti P, Nuti M, Ferretti E, Rughetti A, Farina L

DNA damage response and repair (DDR) gene mutations as an alternative mechanism to generate high TMB in never smoker NSCLC patients. ANNALS OF ONCOLOGY 2022: S1047-S1047

Conte F., Papa F., Paci P., Farina L.

StaRTrEK:in silico estimation of RNA half-lives from genome-wide time-course experiments without transcriptional inhibition. BMC BIOINFORMATICS 2022: 190-

2021

Cipollari S., Guarrasi V., Pecoraro M., Bicchetti M., Messina E., Farina L., Paci P., Catalano C., Panebianco V.

Convolutional neural networks for automated classification of prostate multiparametric magnetic resonance imaging based on image quality. JOURNAL OF MAGNETIC RESONANCE IMAGING 2021: -

Paci P., Fiscon G., Conte F., Wang R. -S., Farina L., Loscalzo J.

Gene co-expression in the interactome: moving from correlation toward causation via an integrated approach to disease module discovery. NPJ SYSTEMS BIOLOGY AND APPLICATIONS 2021: -

Sibilio Pasquale, Bini Simone, Fiscon Giulia, Sponziello Marialuisa, Conte Federica, Pecce Valeria, Durante Cosimo, Paci Paola, Falcone Rosa, Norata Giuseppe Danilo, Farina Lorenzo, Verrienti Antonella

In silico drug repurposing in COVID-19. A network-based analysis. BIOMÉDECINE & PHARMACOTHÉRAPIE 2021: 1-10

Petti M., Farina L., Francone F., Lucidi S., Macali Amalia, Palagi L., De Santis M.

Moses: A new approach to integrate interactome topology and functional features for disease gene prediction. GENES 2021: 1-16

Panebianco Valeria, Paci Paola, Pecoraro Martina, Conte Federica, Carnicelli Giorgia, Besharat Zein Mersini, Catanzaro Giuseppina, Splendiani Elena, Sciarra Alessandro, Farina Lorenzo, Catalano Carlo, Ferretti Elisabetta

Network analysis integrating microRNA expression profiling with MRI biomarkers and clinical data for prostate cancer early detection: a proof of concept study. BIOMEDICINES 2021: -

Farina Lorenzo

Network as a language for precision medicine. ANNALI DELL'ISTITUTO SUPERIORE DI SANITÀ 2021: 331-344

Colonnese Stefania, Petti Manuela, Farina Lorenzo, Scarano Gaetano, Cuomo Francesca

Protein-protein Interaction prediction via graph signal processing. IEEE ACCESS 2021: 1-12

Fiscon G., Conte F., Farina L., Paci P.

SAveRUNNER: A network-based algorithm for drug repurposing and its application to COVID-19. PLOS COMPUTATIONAL BIOLOGY 2021: e1008686-

Petti M., Verrienti A., Paci P., Farina L.

SEaCorAl: Identifying and contrasting the regulation-correlation bias in RNA-Seq paired expression data of patient groups. COMPUTERS IN BIOLOGY AND MEDICINE 2021: -

Pecce V., Verrienti A., Fiscon G., Sponziello M., Conte F., Abballe L., Durante C., Farina L., Filetti S., Paci P.

The role of FOSL1 in stem-like cell reprogramming processes. SCIENTIFIC REPORTS 2021: 1-11

2020

Conte F., Fiscon G., Licursi V., Bizzarri D., D'Anto T., Farina L., Paci P.

A paradigm shift in medicine: a comprehensive review of network-based approaches. BIOCHIMICA ET BIOPHYSICA ACTA. GENE REGULATORY MECHANISMS 2020: -

Petti Manuela, Bizzarri Daniele, Verrienti Antonella, Falcone Rosa, Farina Lorenzo

Connectivity significance for disease gene prioritization in an expanding universe. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2020: 2155-2161

Paci Paola, Fiscon Giulia, Conte Federica, Licursi Valerio, Morrow Jarrett, Hersh Craig, Cho Michael, Castaldi Peter, Glass Kimberly, Silverman Edwin K., Farina Lorenzo

Integrated transcriptomic correlation network analysis identifies COPD molecular determinants. SCIENTIFIC REPORTS 2020: -

Panebianco Valeria, Pecoraro Martina, Fiscon Giulia, Paci Paola, Farina Lorenzo, Catalano Carlo

Prostate cancer screening research can benefit from network medicine: an emerging awareness. NPJ SYSTEMS BIOLOGY AND APPLICATIONS 2020: -

2019

Gentili M., Martini L., Petti M., Farina L., Becchetti L.

Biological Random Walks: Integrating heterogeneous data in disease gene prioritization. 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2019 2019: 1-8

Falcone Rosa, Conte Federica, Fiscon Giulia, Pecce Valeria, Sponziello Marialuisa, Durante Cosimo, Farina Lorenzo, Filetti Sebastiano, Paci Paola, Verrienti Antonella

BRAF V600E -mutant cancers display a variety of networks by SWIM analysis: prediction of vemurafenib clinical response. ENDOCRINE 2019: 406-413

Fiscon Giulia, Conte Federica, Farina Lorenzo, Pellegrini Marco, Russo Francesco, Paci Paola

Identification of Disease-miRNA networks across different cancer types using SWIM. MicroRNA Target Identication: Methods and Protocols 2019: 169-181

Falcone R., Strigari L., Farina L., Marchetti P.

Response to: comment on “Impact of tumor site on the prognosis of small bowel adenocarcinoma”. TUMORI 2019: 532-532

2018

Farina Lorenzo, Paci Paola

A feature-based integrated scoring scheme for cell cycle-regulated genes prioritization. JOURNAL OF THEORETICAL BIOLOGY 2018: 130-141

Fiscon Giulia, Conte Federica, Farina Lorenzo, Paci Paola

Network-based approaches to explore complex biological systems towards network medicine. GENES 2018: -

Falcone R., Paci P., Verrienti A., Fiscon G., Sponziello M., Conte F., Pecce V., Rosignolo F., Grani G., Lamartina L., Ramundo V., Durante C., Farina L., Filetti S.

Prediction of response to vemurafenib in BRAF V600E mutant cancers based on a network approach. ANNALS OF ONCOLOGY 2018: viii667-viii668

2017

Cacace Filippo, Farina Lorenzo, Setola Roberto, Germani Alfredo

Preface. Positive Systems Theory and Applications (POSTA 2016) Rome, Italy, September 14-16, 2016 2017: v-vi

Benvenuti L., Farina L.

Revisiting the linear recursions with nonnegative coefficients problem. LINEAR ALGEBRA AND ITS APPLICATIONS 2017: 191-194

Conte Federica, Fiscon Giulia, Chiara Matteo, Colombo Teresa, Farina Lorenzo, Paci Paola

Role of the long non-coding RNA PVT1 in the dysregulation of the ceRNA-ceRNA network in human breast cancer. PLOS ONE 2017: 1-22

Paci Paola, Colombo Teresa, Fiscon Giulia, Gurtner Aymone, Pavesi Giulio, Farina Lorenzo

SWIM: A computational tool to unveiling crucial nodes in complex biological networks. SCIENTIFIC REPORTS 2017: 44797-

Guarascio F., Farina L.

Topological analysis of migration flows (the case of political refugees). INTERNATIONAL JOURNAL OF COMPUTATIONAL ECONOMICS AND ECONOMETRICS 2017: 359-380

2016

Fiscon G, Conte F, Colombo T, Farina L, Paci P

Integrated network analysis for studying human lung squamous cell carcinoma. Proceeding of GNB2016 2016, section: Bioinformatica 2016: -

2015

M. C. Palumbo, Farina Lorenzo, P. Paci

Kinetic effects and modeling of mRNA turnover. WILEY INTERDISCIPLINARY REVIEWS. RNA 2015: 327-336

Belli Kullan Jayakumar, Lopes Paim Pinto Daniela, Bertolini Edoardo, Fasoli Marianna, Zenoni Sara, Tornielli Giovanni Battista, Pezzotti Mario, Meyers Blake C., Farina Lorenzo, Pè Mario Enrico, Mica Erica

miRVine: a microRNA expression atlas of grapevine based on small RNA sequencing. BMC GENOMICS 2015: -

Colombo Teresa, Farina Lorenzo, Macino Giuseppe, Paci Paola

PVT1: a rising star among oncogenic long non-coding RNAs. BIOMED RESEARCH INTERNATIONAL 2015: -

2014

DE SANTIS Marianna, F. Rinaldi, E. Falcone, Lucidi Stefano, G. Piaggio, A. Gurtner, Farina Lorenzo

Combining optimization and machine learning techniques for genome-wide prediction of human cell cycle-regulated genes. BIOINFORMATICS 2014: 228-233

PACI PAOLA, Colombo Teresa, FARINA Lorenzo

Computational analysis identifies a sponge interaction network between long non-coding RNAs and messenger RNAs in human breast cancer. BMC SYSTEMS BIOLOGY 2014: -