Disease spreading modeling and analysis: A survey

P Hiram Guzzi, F Petrizzelli… - Briefings in …, 2022 - academic.oup.com
Motivation The control of the diffusion of diseases is a critical subject of a broad research
area, which involves both clinical and political aspects. It makes wide use of computational …

Temporal networks in biology and medicine: a survey on models, algorithms, and tools

MM Hosseinzadeh, M Cannataro, PH Guzzi… - … Modeling Analysis in …, 2022 - Springer
The use of static graphs for modelling and analysis of biological and biomedical data plays a
key role in biomedical research. However, many real-world scenarios present dynamic …

[HTML][HTML] Exploiting the molecular basis of age and gender differences in outcomes of SARS-CoV-2 infections

D Mercatelli, E Pedace, P Veltri, FM Giorgi… - Computational and …, 2021 - Elsevier
Motivation: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection
(coronavirus disease, 2019; COVID-19) is associated with adverse outcomes in patients. It …

BioNet: a large-scale and heterogeneous biological network model for interaction prediction with graph convolution

X Yang, W Wang, JL Ma, YL Qiu, K Lu… - Briefings in …, 2022 - academic.oup.com
Motivation Understanding chemical–gene interactions (CGIs) is crucial for screening drugs.
Wet experiments are usually costly and laborious, which limits relevant studies to a small …

Computational analysis of the sequence-structure relation in SARS-CoV-2 spike protein using protein contact networks

PH Guzzi, L Di Paola, B Puccio, U Lomoio, A Giuliani… - Scientific reports, 2023 - nature.com
The structure of proteins impacts directly on the function they perform. Mutations in the
primary sequence can provoke structural changes with consequent modification of …

Repurposing of drugs for SARS-CoV-2 using inverse docking fingerprints

M Jukič, K Kores, D Janežič, U Bren - Frontiers in Chemistry, 2021 - frontiersin.org
Severe acute respiratory syndrome coronavirus 2 or SARS-CoV-2 is a virus that belongs to
the Coronaviridae family. This group of viruses commonly causes colds but possesses a …

Characterizing genomic variants and mutations in SARS-CoV-2 proteins from Indian isolates

JK Das, A Sengupta, PP Choudhury, S Roy - Gene Reports, 2021 - Elsevier
SARS-CoV-2 is mutating and creating divergent variants by altering the composition of
essential constituent proteins. Pharmacologically, it is crucial to understand the diverse …

The ihi rochester report 2022 on healthcare informatics research: Resuming after the covid-19

C Combi, JC Facelli, P Haddawy, JH Holmes… - Journal of healthcare …, 2023 - Springer
Abstract In 2020, the CoViD-19 pandemic spread worldwide in an unexpected way and
suddenly modified many life issues, including social habits, social relationships, teaching …

PCN-Miner: An open-source extensible tool for the Analysis of Protein Contact Networks

PH Guzzi, L Di Paola, A Giuliani, P Veltri - Bioinformatics, 2022 - academic.oup.com
Abstract Motivation Protein Contact Network (PCN) is a powerful method for analysing the
structure and function of proteins, with a specific focus on disclosing the molecular features …

Analyzing host-viral interactome of SARS-CoV-2 for identifying vulnerable host proteins during COVID-19 pathogenesis

JK Das, S Roy, PH Guzzi - Infection, Genetics and Evolution, 2021 - Elsevier
The development of therapeutic targets for COVID-19 relies on understanding the molecular
mechanism of pathogenesis. Identifying genes or proteins involved in the infection …