Vincenzo Bonnici

44 papers A 2C 4Misc 1Journal 29Unranked 7
YearRankTypeTitle / Venue / Authors
2025 J jnl
EasyCircR: Detection and reconstruction of circular RNAs post-transcriptional regulatory interaction networks.
Comput. Biol. Medicine
Antonino Aparo, Simone Avesani, Luca Parmigiani, Sara Napoli, Francesco Bertoni, Vincenzo Bonnici, Luciano Cascione, Rosalba Giugno
2025 C conf
Leveraging Graph Information for Spatially Informed Patient Data Analysis with GIST.
CIBCB
Gospel Ozioma Nnadi, Vincenzo Bonnici, Simone Avesani, Eva Viesi, Rosalba Giugno
2025 J jnl
MultiGraphMatch: A Subgraph Matching Algorithm for Multigraphs.
ACM Trans. Knowl. Discov. Data
Giovanni Micale, Antonio Di Maria, Roberto Grasso, Vincenzo Bonnici, Alfredo Ferro, Dennis Shasha, Rosalba Giugno, Alfredo Pulvirenti
2025 J jnl
MultiGraphMatch: a subgraph matching algorithm for multigraphs.
CoRR
Giovanni Micale, Antonio Di Maria, Roberto Grasso, Vincenzo Bonnici, Alfredo Ferro, Dennis Shasha, Rosalba Giugno, Alfredo Pulvirenti
2025 J jnl
PanDelos-plus: A parallel algorithm for computing sequence homology in pangenomic analysis.
CoRR
Simone Colli, Emiliano Maresi, Vincenzo Bonnici
2024 J jnl
A Maximum Value for the Kullback-Leibler Divergence between Quantized Distributions.
Inf.
Vincenzo Bonnici
2024 J jnl
ArcMatch: high-performance subgraph matching for labeled graphs by exploiting edge domains.
Data Min. Knowl. Discov.
Vincenzo Bonnici, Roberto Grasso, Giovanni Micale, Antonio Di Maria, Dennis Shasha, Alfredo Pulvirenti, Rosalba Giugno
2024 J jnl
DiGAS: Differential gene allele spectrum as a descriptor in genetic studies.
Comput. Biol. Medicine
Antonino Aparo, Vincenzo Bonnici, Simone Avesani, Luciano Cascione, Rosalba Giugno
2024 J jnl
Seven quick tips for gene-focused computational pangenomic analysis.
BioData Min.
Vincenzo Bonnici, Davide Chicco
2023 — conf
A Machine Learning Approach for Source Code Similarity via Graph-Focused Features.
LOD (1)
Giacomo Boldini, Alessio Diana, Vincenzo Arceri, Vincenzo Bonnici, Roberto Bagnara
2023 — conf
An Investigation to Test Spectral Segments as Bacterial Biomarkers.
UCNC
Silvia Astorino, Vincenzo Bonnici, Giuditta Franco
2023 C conf
BIOCHAIN: towards a platform for securely sharing microbiological data.
IDEAS
Vincenzo Bonnici, Vincenzo Arceri, Alessio Diana, Flavio Bertini, Eleonora Iotti, Alessia Levante, Valentina Bernini, Erasmo Neviani, Alessandro Dal Palù
2023 — book
Infogenomics - The Informational Analysis of Genomes
Vincenzo Manca, Vincenzo Bonnici
2023 A conf
MODIMO: Workshop on Multi-Omics Data Integration for Modelling Biological Systems.
CIKM
Simone Avesani, Vincenzo Bonnici, Simone Pernice, Marco Beccuti, Rosalba Giugno
2023 J jnl
PanDelos-frags: A methodology for discovering pangenomic content of incomplete microbial assemblies.
J. Biomed. Informatics
Vincenzo Bonnici, Claudia Mengoni, Manuel Mangoni, Giuditta Franco, Rosalba Giugno
2022 J jnl
PANPROVA: pangenomic prokaryotic evolution of full assemblies.
Bioinform.
Vincenzo Bonnici, Rosalba Giugno
2021 — conf
A k-mer Based Sequence Similarity for Pangenomic Analyses.
LOD
Vincenzo Bonnici, Andrea Cracco, Giuditta Franco
2021 — conf
An Entropy Heuristic to Optimize Decision Diagrams for Index-driven Search in Biological Graph Databases.
CIKM Workshops
Nicola Licheri, Elvio Amparone, Vincenzo Bonnici, Rosalba Giugno, Marco Beccuti
2021 J jnl
Challenges in gene-oriented approaches for pangenome content discovery.
Briefings Bioinform.
Vincenzo Bonnici, Emiliano Maresi, Rosalba Giugno
2021 J jnl
GRAFIMO: Variant and haplotype aware motif scanning on pangenome graphs.
PLoS Comput. Biol.
Manuel Tognon, Vincenzo Bonnici, Erik Garrison, Rosalba Giugno, Luca Pinello
2021 J jnl
GRAPES-DD: exploiting decision diagrams for index-driven search in biological graph databases.
BMC Bioinform.
Nicola Licheri, Vincenzo Bonnici, Marco Beccuti, Rosalba Giugno
2021 A conf
MODIMO: Workshop on Multi-Omics Data Integration for Modelling Biological Systems.
CIKM
Marco Beccuti, Vincenzo Bonnici, Rosalba Giugno
2021 J jnl
Spectral concepts in genome informational analysis.
CoRR
Vincenzo Bonnici, Giuditta Franco, Vincenzo Manca
2021 J jnl
Spectral concepts in genome informational analysis.
Theor. Comput. Sci.
Vincenzo Bonnici, Giuditta Franco, Vincenzo Manca
2021 J jnl
TEDAR: Temporal dynamic signal detection of adverse reactions.
Artif. Intell. Medicine
Antonino Aparo, Pietro Sala, Vincenzo Bonnici, Rosalba Giugno
2020 J jnl
A maximum value for the Kullback-Leibler divergence between quantum discrete distributions.
CoRR
Vincenzo Bonnici
2020 J jnl
A word recurrence based algorithm to extract genomic dictionaries.
CoRR
Vincenzo Bonnici, Giuditta Franco, Vincenzo Manca
2020 J jnl
MultiRI: Fast Subgraph Matching in Labeled Multigraphs.
CoRR
Giovanni Micale, Vincenzo Bonnici, Alfredo Ferro, Dennis E. Shasha, Rosalba Giugno, Alfredo Pulvirenti
2019 C conf
LErNet: characterization of lncRNAs via context-aware network expansion and enrichment analysis.
CIBCB
Vincenzo Bonnici, Simone Caligola, Giulia Fiorini, Luca Giudice, Rosalba Giugno
2019 C conf
Parallel Searching on Biological Networks.
PDP
Nicola Bombieri, Vincenzo Bonnici, Rosalba Giugno
2018 — conf
An Efficient Implementation of a Subgraph Isomorphism Algorithm for GPUs.
BIBM
Vincenzo Bonnici, Rosalba Giugno, Nicola Bombieri
2018 J jnl
An Informational Test for Random Finite Strings.
Entropy
Vincenzo Bonnici, Vincenzo Manca
2018 J jnl
Arena-Idb: a platform to build human non-coding RNA interaction networks.
BMC Bioinform.
Vincenzo Bonnici, Giorgio De Caro, Giorgio Constantino, Sabino Liuni, Domenica D'Elia, Nicola Bombieri, Flavio Licciulli, Rosalba Giugno
2018 — conf
Centrality Speeds the Subgraph Isomorphism Search Up in Target Aware Contexts.
CIBB
Vincenzo Bonnici, Simone Caligola, Antonino Aparo, Rosalba Giugno
2018 J jnl
Correction to: cuRnet: an R package for graph traversing on GPU.
BMC Bioinform.
Vincenzo Bonnici, Federico Busato, Stefano Aldegheri, Murodzhon Akhmedov, Luciano Cascione, Alberto Arribas Carmena, Francesco Bertoni, Nicola Bombieri, Ivo Kwee, Rosalba Giugno
2018 Misc conf
Simple Pattern-only Heuristics Lead to Fast Subgraph Matching Strategies on Very Large Networks.
PACBB
Antonino Aparo, Vincenzo Bonnici, Giovanni Micale, Alfredo Ferro, Dennis E. Shasha, Alfredo Pulvirenti, Rosalba Giugno
2018 J jnl
cuRnet: an R package for graph traversing on GPU.
BMC Bioinform.
Vincenzo Bonnici, Federico Busato, Stefano Aldegheri, Murodzhon Akhmedov, Luciano Cascione, Alberto Arribas Carmena, Francesco Bertoni, Nicola Bombieri, Ivo Kwee, Rosalba Giugno
2018 J jnl
miRandola 2017: a curated knowledge base of non-invasive biomarkers.
Nucleic Acids Res.
Francesco Russo, Sebastiano Di Bella, Federica Vannini, Gabriele Berti, Flavia Scoyni, Helen Cook, Alberto Santos, Giovanni Nigita, Vincenzo Bonnici, Alessandro Laganà, Filippo Geraci, Alfredo Pulvirenti, Rosalba Giugno, Federico De Masi, Kirstine Belling, Lars Juhl Jensen, Søren Brunak, Marco Pellegrini, Alfredo Ferro
2017 J jnl
On the Variable Ordering in Subgraph Isomorphism Algorithms.
IEEE ACM Trans. Comput. Biol. Bioinform.
Vincenzo Bonnici, Rosalba Giugno
2016 J jnl
APPAGATO: an APproximate PArallel and stochastic GrAph querying TOol for biological networks.
Bioinform.
Vincenzo Bonnici, Federico Busato, Giovanni Micale, Nicola Bombieri, Alfredo Pulvirenti, Rosalba Giugno
2015 J jnl
DT-Web: a web-based application for drug-target interaction and drug combination prediction through domain-tuned network-based inference.
BMC Syst. Biol.
Salvatore Alaimo, Vincenzo Bonnici, Damiano Cancemi, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti
2015 J jnl
NetMatchStar: an enhanced Cytoscape network querying app.
F1000Research
Fabio Rinnone, Giovanni Micale, Vincenzo Bonnici, Gary D. Bader, Dennis E. Shasha, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
2013 J jnl
A subgraph isomorphism algorithm and its application to biochemical data.
BMC Bioinform.
Vincenzo Bonnici, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha, Alfredo Ferro
2010 — conf
Enhancing Graph Database Indexing by Suffix Tree Structure.
PRIB
Vincenzo Bonnici, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha