Alfredo Ferro

76 papers A 3B 5C 1Misc 2Journal 46Unranked 14
YearRankTypeTitle / Venue / Authors
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
2024 — conf
A Sound and Complete Validity Test for Formulas in Extensional Multi-level Syllogistic.
From Computational Logic to Computational Biology
Alfredo Ferro, Eugenio G. Omodeo
2024 J jnl
NetMe 2.0: a web-based platform for extracting and modeling knowledge from biomedical literature as a labeled graph.
Bioinform.
Antonio Di Maria, Lorenzo Bellomo, Fabrizio Billeci, Alfio Cardillo, Salvatore Alaimo, Paolo Ferragina, Alfredo Ferro, Alfredo Pulvirenti
2023 J jnl
DEGGs: an R package with shiny app for the identification of differentially expressed gene-gene interactions in high-throughput sequencing data.
Bioinform.
Elisabetta C. Sciacca, Salvatore Alaimo, Gianmarco Silluzio, Alfredo Ferro, Vito Latora, Costantino Pitzalis, Alfredo Pulvirenti, Myles J. Lewis
2023 — conf
MASFENON: Multi-Agent Adaptive Simulation Framework for Evolution in Networks of Networks.
BIBM
Giorgio Locicero, Salvatore Alaimo, Alfredo Ferro, Alfredo Pulvirenti
2022 — conf
COMBO: A Computational Framework to Analyze RNA-seq and Methylation Data Through Heterogeneous Multi-layer Networks.
COMPLEX NETWORKS (1)
Ilaria Cosentini, Vincenza Barresi, Daniele Filippo Condorelli, Alfredo Ferro, Alfredo Pulvirenti, Salvatore Alaimo
2022 J jnl
NETME: on-the-fly knowledge network construction from biomedical literature.
Appl. Netw. Sci.
Alessandro Muscolino, Antonio Di Maria, Rosaria Valentina Rapicavoli, Salvatore Alaimo, Lorenzo Bellomo, Fabrizio Billeci, Stefano Borzì, Paolo Ferragina, Alfredo Ferro, Alfredo Pulvirenti
2022 J jnl
Virus finding tools: current solutions and limitations.
Briefings Bioinform.
Grete Francesca Privitera, Salvatore Alaimo, Alfredo Ferro, Alfredo Pulvirenti
2021 J jnl
MODIT: MOtif DIscovery in Temporal Networks.
Frontiers Big Data
Roberto Grasso, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti
2021 J jnl
PHENSIM: Phenotype Simulator.
PLoS Comput. Biol.
Salvatore Alaimo, Rosaria Valentina Rapicavoli, Gioacchino P. Marceca, Alessandro La Ferlita, Oksana B. Serebrennikova, Philip N. Tsichlis, Bud Mishra, Alfredo Pulvirenti, Alfredo Ferro
2021 J jnl
RNAdetector: a free user-friendly stand-alone and cloud-based system for RNA-Seq data analysis.
BMC Bioinform.
Alessandro La Ferlita, Salvatore Alaimo, Sebastiano Di Bella, Emanuele Martorana, Georgios I. Laliotis, Francesco Bertoni, Luciano Cascione, Philip N. Tsichlis, Alfredo Ferro, Roberta Bosotti, Alfredo Pulvirenti
2021 J jnl
TemporalRI: subgraph isomorphism in temporal networks with multiple contacts.
Appl. Netw. Sci.
Giovanni Micale, Giorgio Locicero, Alfredo Pulvirenti, Alfredo Ferro
2020 J jnl
A benchmarking of pipelines for detecting ncRNAs from RNA-Seq data.
Briefings Bioinform.
Sebastiano Di Bella, Alessandro La Ferlita, Giovanni Carapezza, Salvatore Alaimo, Antonella Isacchi, Alfredo Ferro, Alfredo Pulvirenti, Roberta Bosotti
2020 J jnl
Establish the expected number of induced motifs on unlabeled graphs through analytical models.
Appl. Netw. Sci.
Emanuele Martorana, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti
2020 J jnl
MultiRI: Fast Subgraph Matching in Labeled Multigraphs.
CoRR
Giovanni Micale, Vincenzo Bonnici, Alfredo Ferro, Dennis E. Shasha, Rosalba Giugno, Alfredo Pulvirenti
2020 — conf
NETME: On-the-Fly Knowledge Network Construction from Biomedical Literature.
COMPLEX NETWORKS (2)
Alessandro Muscolino, Antonio Di Maria, Salvatore Alaimo, Stefano Borzì, Paolo Ferragina, Alfredo Ferro, Alfredo Pulvirenti
2020 — conf
TemporalRI: A Subgraph Isomorphism Algorithm for Temporal Networks.
COMPLEX NETWORKS (2)
Giorgio Locicero, Giovanni Micale, Alfredo Pulvirenti, Alfredo Ferro
2019 — conf
Establish the Expected Number of Injective Motifs on Unlabeled Graphs Through Analytical Models.
COMPLEX NETWORKS (2)
Emanuele Martorana, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti
2019 J jnl
Exploring the Role of Interdisciplinarity in Physics: Success, Talent and Luck.
CoRR
Alessandro Pluchino, Giulio Burgio, Andrea Rapisarda, Alessio Emanuele Biondo, Alfredo Pulvirenti, Alfredo Ferro, Toni Giorgino
2019 J jnl
Fast methods for finding significant motifs on labelled multi-relational networks.
J. Complex Networks
Giovanni Micale, Alfredo Pulvirenti, Alfredo Ferro, Rosalba Giugno, Dennis E. Shasha
2019 J jnl
Identification of tRNA-derived ncRNAs in TCGA and NCI-60 panel cell lines and development of the public database tRFexplorer.
Database J. Biol. Databases Curation
Alessandro La Ferlita, Salvatore Alaimo, Dario Veneziano, Giovanni Nigita, Veronica Balatti, Carlo Maria Croce, Alfredo Ferro, Alfredo Pulvirenti
2019 J jnl
TACITuS: transcriptomic data collector, integrator, and selector on big data platform.
BMC Bioinform.
Salvatore Alaimo, Antonio Di Maria, Dennis E. Shasha, Alfredo Ferro, Alfredo Pulvirenti
2018 J jnl
Fast analytical methods for finding significant labeled graph motifs.
Data Min. Knowl. Discov.
Giovanni Micale, Rosalba Giugno, Alfredo Ferro, Misael Mongiovì, Dennis E. Shasha, Alfredo Pulvirenti
2018 J jnl
INBIA: a boosting methodology for proteomic network inference.
BMC Bioinform.
Davide S. Sardina, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti, 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 — ch.
gLabTrie: A Data Structure for Motif Discovery with Constraints.
Graph Data Management
Misael Mongiovì, Giovanni Micale, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha
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
A novel computational method for inferring competing endogenous interactions.
Briefings Bioinform.
Davide S. Sardina, Salvatore Alaimo, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
2015 J jnl
A knowledge base for Vitis vinifera functional analysis.
BMC Syst. Biol.
Alfredo Pulvirenti, Rosalba Giugno, Rosario Distefano, Giuseppe Pigola, Misael Mongiovì, Girolamo Giudice, Vera Vendramin, Alessandro Lombardo, Federica Cattonaro, Alfredo Ferro
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
2015 J jnl
OCDB: a database collecting genes, miRNAs and drugs for obsessive-compulsive disorder.
Database J. Biol. Databases Curation
Anna P. Privitera, Rosario Distefano, Hugo A. Wefer, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
2015 J jnl
Post-transcriptional knowledge in pathway analysis increases the accuracy of phenotypes classification.
CoRR
Salvatore Alaimo, Rosalba Giugno, Mario Acunzo, Dario Veneziano, Alfredo Ferro, Alfredo Pulvirenti
2014 Misc ed.
Fun with Algorithms - 7th International Conference, FUN 2014, Lipari Island, Sicily, Italy, July 1-3, 2014. Proceedings
FUN
Alfredo Ferro, Fabrizio Luccio, Peter Widmayer
2014 J jnl
GASOLINE: a Cytoscape app for multiple local alignment of PPI networks.
F1000Research
Giovanni Micale, Andrea Continella, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti
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
2013 J jnl
Bioinformatics in Italy: BITS 2012, the ninth annual meeting of the Italian Society of Bioinformatics.
BMC Bioinform.
Carmela Gissi, Paolo Romano, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Angelo M. Facchiano, Manuela Helmer-Citterich
2013 J jnl
Drug-target interaction prediction through domain-tuned network-based inference.
Bioinform.
Salvatore Alaimo, Alfredo Pulvirenti, Rosalba Giugno, Alfredo Ferro
2013 J jnl
Enhancing density-based clustering: Parameter reduction and outlier detection.
Inf. Syst.
Carmelo Cassisi, Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti
2013 J jnl
VIRGO: visualization of A-to-I RNA editing sites in genomic sequences.
BMC Bioinform.
Rosario Distefano, Giovanni Nigita, Valentina Macca, Alessandro Laganà, Rosalba Giugno, Alfredo Pulvirenti, Alfredo Ferro
2012 J jnl
miR-EdiTar: a database of predicted A-to-I edited miRNA target sites.
Bioinform.
Alessandro Laganà, Alessio Paone, Dario Veneziano, Luciano Cascione, Pierluigi Gasparini, Stefania Carasi, Francesco Russo, Giovanni Nigita, Valentina Macca, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha, Alfredo Ferro, Carlo Maria Croce
2011 — ch.
Behind Efficient Algorithms to Search in Graphs.
Graph Data Management
Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha
2011 B ed.
Fourth International Conference on Similarity Search and Applications, SISAP 2011, Lipari Island, Italy, June 30 - July 01, 2011
SISAP
Alfredo Ferro
2011 J jnl
Obstacles constrained group mobility models in event-driven wireless networks with movable base stations.
Ad Hoc Networks
S. Cristaldi, Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti
2010 B conf
An Efficient Duplicate Record Detection Using q-Grams Array Inverted Index.
DaWak
Alfredo Ferro, Rosalba Giugno, Piera Laura Puglisi, Alfredo Pulvirenti
2010 — conf
Enhancing Graph Database Indexing by Suffix Tree Structure.
PRIB
Vincenzo Bonnici, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha
2010 — conf
MySQL Data Mining: Extending MySQL to Support Data Mining Primitives (Demo).
KES (3)
Alfredo Ferro, Rosalba Giugno, Piera Laura Puglisi, Alfredo Pulvirenti
2010 J jnl
SING: Subgraph search In Non-homogeneous Graphs.
BMC Bioinform.
Raffaele Di Natale, Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti, Dennis E. Shasha
2010 J jnl
Sigma: a Set-Cover-Based Inexact Graph Matching Algorithm.
J. Bioinform. Comput. Biol.
Misael Mongiovì, Raffaele Di Natale, Rosalba Giugno, Alfredo Pulvirenti, Alfredo Ferro, Roded Sharan
2009 B conf
BitCube: A Bottom-Up Cubing Engineering.
DaWaK
Alfredo Ferro, Rosalba Giugno, Piera Laura Puglisi, Alfredo Pulvirenti
2009 A conf
Distributed randomized algorithms for low-support data mining.
IPDPS
Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti
2009 J jnl
miRò: a miRNA knowledge base.
Database J. Biol. Databases Curation
Alessandro Laganà, Stefano Forte, A. Giudice, M. R. Arena, Piera Laura Puglisi, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha, Alfredo Ferro
2008 J jnl
GraphFind: enhancing graph searching by low support data mining techniques.
BMC Bioinform.
Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti, Dmitry Skripin, Dennis E. Shasha
2007 J jnl
NetMatch: a Cytoscape plugin for searching biological networks.
Bioinform.
Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti, Dmitry Skripin, Gary D. Bader, Dennis E. Shasha
2007 J jnl
Sequence similarity is more relevant than species specificity in probabilistic backtranslation.
BMC Bioinform.
Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti, Cinzia Di Pietro, Michele Purrello, Marco Ragusa
2006 A conf
Distributed antipole clustering for efficient data search and management in Euclidean and metric spaces.
IPDPS
Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Giuseppe Pigola, Alfredo Pulvirenti
2005 J jnl
An Efficient Approximate Algorithm for the 1-Median Problem in Metric Spaces.
SIAM J. Optim.
Domenico Cantone, Gianluca Cincotti, Alfredo Ferro, Alfredo Pulvirenti
2005 — ch.
AntiClustAl: Multiple Sequence Alignment by Antipole Clustering.
Data Mining in Bioinformatics
Cinzia Di Pietro, Alfredo Ferro, Giuseppe Pigola, Alfredo Pulvirenti, Michele Purrello, Marco Ragusa, Dennis E. Shasha
2005 J jnl
Antipole Tree Indexing to Support Range Search and K-Nearest Neighbor Search in Metric Spaces.
IEEE Trans. Knowl. Data Eng.
Domenico Cantone, Alfredo Ferro, Alfredo Pulvirenti, Diego Reforgiato Recupero, Dennis E. Shasha
2005 — conf
Multiple-Winners Randomized Tournaments with Consensus for Optimization Problems in Generic Metric Spaces.
WEA
Domenico Cantone, Alfredo Ferro, Rosalba Giugno, Giuseppe Lo Presti, Alfredo Pulvirenti
2004 C conf
Locally sensitive backtranslation based on multiple sequence alignment.
CIBCB
Rosalba Giugno, Alfredo Pulvirenti, Marco Ragusa, Loredana Facciola, Laura Patelmo, Valentina Di Pietro, Cinzia Di Pietro, Michele Purrello, Alfredo Ferro
2003 — conf
ANTICLUSTAL: Multiple Sequence Alignment by Antipole Clustering and Linear Approximate 1-Median Computation.
CSB
Cinzia Di Pietro, Valentina Di Pietro, Giovanni Emmanuele, Alfredo Ferro, T. Maugeri, E. Modica, Giuseppe Pigola, Alfredo Pulvirenti, Michele Purrello, Marco Ragusa, Marina Scalia, Dennis E. Shasha, Salvo Travali, V. Zimmitti
2003 — conf
Efficient Boundary Values Generation in General Metric Spaces for Software Component Testing.
Verification: Theory and Practice
Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti
2003 J jnl
Fast Clustering and Minimum Weight Matching Algorithms for Very Large Mobile Backbone Wireless Networks.
Int. J. Found. Comput. Sci.
Alfredo Ferro, Giuseppe Pigola, Alfredo Pulvirenti, Dennis E. Shasha
2001 J jnl
Best-Match Retrieval for Structured Images.
IEEE Trans. Pattern Anal. Mach. Intell.
Alfredo Ferro, Giovanni Gallo, Rosalba Giugno, Alfredo Pulvirenti
2000 — conf
Approximate search in image database.
Storage and Retrieval for Media Databases
Alfredo Ferro, Giovanni Gallo, Rosalba Giugno
1999 — conf
Error-Tolerant Database for Structured Images.
VISUAL
Alfredo Ferro, Giovanni Gallo, Rosalba Giugno
1997 B conf
Automatic Compile-time Parallelization of Prolog Programs for Dependent And-Parallelism.
ICLP
Enrico Pontelli, Gopal Gupta, Francesco Pulvirenti, Alfredo Ferro
1991 J jnl
Decision Procedures for Elementary Sublanguages of Set Theory: XII. Multilevel Syllogistic Extended with Singleton and Choice Operators.
J. Autom. Reason.
Alfredo Ferro
1989 — book
Computable set theory. Volume 1.
Domenico Cantone, Alfredo Ferro, Eugenio G. Omodeo
1988 B conf
Decision Procedures for Elementary Sublanguages of Set Theory. XIV. Three Languages Involving Rank Related Constructs.
ISSAC
Domenico Cantone, Vincenzo Cutello, Alfredo Ferro
1987 J jnl
Decision Procedures for Elementary Sublanguages of Set Theory. V. Multilevel Syllogistic Extended by the General Union Operator.
J. Comput. Syst. Sci.
Domenico Cantone, Alfredo Ferro, Jacob T. Schwartz
1987 — conf
Groebner Bases, Ritt's Algorithm and Decision Procedures for Algebraic Theories.
AAECC
Alfredo Ferro, Giovanni Gallo
1981 — —
Decision Procedures for some Classes of Unquantified Set Theoretic Formulae.
Alfredo Ferro
1980 A conf
Decision Procedures for Some Fragments of Set Theory.
CADE
Alfredo Ferro, Eugenio G. Omodeo, Jacob T. Schwartz