Alfredo Ferro

Publication Activity (10 Years)

Years Active: 1980-2024
Publications (10 Years): 30

Top Topics

Subgraph Isomorphism

Functional Analysis

Analytical Models

Top Venues

COMPLEX NETWORKS (2)

Briefings Bioinform.

Publications

Alfredo Ferro, Eugenio G. Omodeo
A Sound and Complete Validity Test for Formulas in Extensional Multi-level Syllogistic. From Computational Logic to Computational Biology (2024)
Giorgio Locicero, Salvatore Alaimo, Alfredo Ferro, Alfredo Pulvirenti
MASFENON: Multi-Agent Adaptive Simulation Framework for Evolution in Networks of Networks. BIBM (2023)
Elisabetta C. Sciacca, Salvatore Alaimo, Gianmarco Silluzio, Alfredo Ferro, Vito Latora, Costantino Pitzalis, Alfredo Pulvirenti, Myles J. Lewis
DEGGs: an R package with shiny app for the identification of differentially expressed gene-gene interactions in high-throughput sequencing data. Bioinform. 39 (4) (2023)
Ilaria Cosentini, Vincenza Barresi, Daniele Filippo Condorelli, Alfredo Ferro, Alfredo Pulvirenti, Salvatore Alaimo
COMBO: A Computational Framework to Analyze RNA-seq and Methylation Data Through Heterogeneous Multi-layer Networks. COMPLEX NETWORKS (1) (2022)
Grete Francesca Privitera, Salvatore Alaimo, Alfredo Ferro, Alfredo Pulvirenti
Virus finding tools: current solutions and limitations. Briefings Bioinform. 23 (4) (2022)
Alessandro Muscolino, Antonio Di Maria, Rosaria Valentina Rapicavoli, Salvatore Alaimo, Lorenzo Bellomo, Fabrizio Billeci, Stefano Borzi, Paolo Ferragina, Alfredo Ferro, Alfredo Pulvirenti
NETME: on-the-fly knowledge network construction from biomedical literature. Appl. Netw. Sci. 7 (1) (2022)
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
RNAdetector: a free user-friendly stand-alone and cloud-based system for RNA-Seq data analysis. BMC Bioinform. 22 (1) (2021)
Roberto Grasso, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti
MODIT: MOtif DIscovery in Temporal Networks. Frontiers Big Data 4 (2021)
Salvatore Alaimo, Rosaria Valentina Rapicavoli, Gioacchino P. Marceca, Alessandro La Ferlita, Oksana B. Serebrennikova, Philip N. Tsichlis, Bud Mishra, Alfredo Pulvirenti, Alfredo Ferro
PHENSIM: Phenotype Simulator. PLoS Comput. Biol. 17 (6) (2021)
Giovanni Micale, Giorgio Locicero, Alfredo Pulvirenti, Alfredo Ferro
TemporalRI: subgraph isomorphism in temporal networks with multiple contacts. Appl. Netw. Sci. 6 (1) (2021)
Emanuele Martorana, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti
Establish the expected number of induced motifs on unlabeled graphs through analytical models. Appl. Netw. Sci. 5 (1) (2020)
Alessandro Muscolino, Antonio Di Maria, Salvatore Alaimo, Stefano Borzi, Paolo Ferragina, Alfredo Ferro, Alfredo Pulvirenti
NETME: On-the-Fly Knowledge Network Construction from Biomedical Literature. COMPLEX NETWORKS (2) (2020)
Giorgio Locicero, Giovanni Micale, Alfredo Pulvirenti, Alfredo Ferro
TemporalRI: A Subgraph Isomorphism Algorithm for Temporal Networks. COMPLEX NETWORKS (2) (2020)
Giovanni Micale, Vincenzo Bonnici, Alfredo Ferro, Dennis E. Shasha, Rosalba Giugno, Alfredo Pulvirenti
MultiRI: Fast Subgraph Matching in Labeled Multigraphs. CoRR (2020)
Sebastiano Di Bella, Alessandro La Ferlita, Giovanni Carapezza, Salvatore Alaimo, Antonella Isacchi, Alfredo Ferro, Alfredo Pulvirenti, Roberta Bosotti
A benchmarking of pipelines for detecting ncRNAs from RNA-Seq data. Briefings Bioinform. 21 (6) (2020)
Giovanni Micale, Alfredo Pulvirenti, Alfredo Ferro, Rosalba Giugno, Dennis E. Shasha
Fast methods for finding significant motifs on labelled multi-relational networks. J. Complex Networks 7 (6) (2019)
Alessandro La Ferlita, Salvatore Alaimo, Dario Veneziano, Giovanni Nigita, Veronica Balatti, Carlo Maria Croce, Alfredo Ferro, Alfredo Pulvirenti
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 2019 (2019)
Salvatore Alaimo, Antonio Di Maria, Dennis E. Shasha, Alfredo Ferro, Alfredo Pulvirenti
TACITuS: transcriptomic data collector, integrator, and selector on big data platform. BMC Bioinform. (9) (2019)
Alessandro Pluchino, Giulio Burgio, Andrea Rapisarda, Alessio Emanuele Biondo, Alfredo Pulvirenti, Alfredo Ferro, Toni Giorgino
Exploring the Role of Interdisciplinarity in Physics: Success, Talent and Luck. CoRR (2019)
Emanuele Martorana, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti
Establish the Expected Number of Injective Motifs on Unlabeled Graphs Through Analytical Models. COMPLEX NETWORKS (2) (2019)
Antonino Aparo, Vincenzo Bonnici, Giovanni Micale, Alfredo Ferro, Dennis E. Shasha, Alfredo Pulvirenti, Rosalba Giugno
Simple Pattern-only Heuristics Lead to Fast Subgraph Matching Strategies on Very Large Networks. PACBB (2018)
Davide S. Sardina, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
INBIA: a boosting methodology for proteomic network inference. BMC Bioinform. (7) (2018)
Giovanni Micale, Rosalba Giugno, Alfredo Ferro, Misael Mongiovì, Dennis E. Shasha, Alfredo Pulvirenti
Fast analytical methods for finding significant labeled graph motifs. Data Min. Knowl. Discov. 32 (2) (2018)
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
miRandola 2017: a curated knowledge base of non-invasive biomarkers. Nucleic Acids Res. 46 (Database-Issue) (2018)
Davide S. Sardina, Salvatore Alaimo, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
A novel computational method for inferring competing endogenous interactions. Briefings Bioinform. 18 (6) (2017)
Alfredo Pulvirenti, Rosalba Giugno, Rosario Distefano, Giuseppe Pigola, Misael Mongiovì, Girolamo Giudice, Vera Vendramin, Alessandro Lombardo, Federica Cattonaro, Alfredo Ferro
A knowledge base for Vitis vinifera functional analysis. BMC Syst. Biol. 9 (S-3) (2015)
Anna P. Privitera, Rosario Distefano, Hugo A. Wefer, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
OCDB: a database collecting genes, miRNAs and drugs for obsessive-compulsive disorder. Database J. Biol. Databases Curation 2015 (2015)
Salvatore Alaimo, Rosalba Giugno, Mario Acunzo, Dario Veneziano, Alfredo Ferro, Alfredo Pulvirenti
Post-transcriptional knowledge in pathway analysis increases the accuracy of phenotypes classification. CoRR (2015)
Fabio Rinnone, Giovanni Micale, Vincenzo Bonnici, Gary D. Bader, Dennis E. Shasha, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno
NetMatchStar: an enhanced Cytoscape network querying app. F1000Research 4 (2015)
Salvatore Alaimo, Vincenzo Bonnici, Damiano Cancemi, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti
DT-Web: a web-based application for drug-target interaction and drug combination prediction through domain-tuned network-based inference. BMC Syst. Biol. 9 (S-3) (2015)
Giovanni Micale, Andrea Continella, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti
GASOLINE: a Cytoscape app for multiple local alignment of PPI networks. F1000Research 3 (2014)
Rosario Distefano, Giovanni Nigita, Valentina Macca, Alessandro Laganà, Rosalba Giugno, Alfredo Pulvirenti, Alfredo Ferro
VIRGO: visualization of A-to-I RNA editing sites in genomic sequences. BMC Bioinform. 14 (S-7) (2013)
Vincenzo Bonnici, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha, Alfredo Ferro
A subgraph isomorphism algorithm and its application to biochemical data. BMC Bioinform. 14 (S-7) (2013)
Carmela Gissi, Paolo Romano, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Angelo M. Facchiano, Manuela Helmer-Citterich
Bioinformatics in Italy: BITS 2012, the ninth annual meeting of the Italian Society of Bioinformatics. BMC Bioinform. 14 (S-7) (2013)
Carmelo Cassisi, Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti
Enhancing density-based clustering: Parameter reduction and outlier detection. Inf. Syst. 38 (3) (2013)
Salvatore Alaimo, Alfredo Pulvirenti, Rosalba Giugno, Alfredo Ferro
Drug-target interaction prediction through domain-tuned network-based inference. Bioinform. 29 (16) (2013)
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
miR-EdiTar: a database of predicted A-to-I edited miRNA target sites. Bioinform. 28 (23) (2012)
S. Cristaldi, Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti
Obstacles constrained group mobility models in event-driven wireless networks with movable base stations. Ad Hoc Networks 9 (3) (2011)
Raffaele Di Natale, Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti, Dennis E. Shasha
SING: Subgraph search In Non-homogeneous Graphs. BMC Bioinform. 11 (2010)
Misael Mongiovì, Raffaele Di Natale, Rosalba Giugno, Alfredo Pulvirenti, Alfredo Ferro, Roded Sharan
Sigma: a Set-Cover-Based Inexact Graph Matching Algorithm. J. Bioinform. Comput. Biol. 8 (2) (2010)
Alfredo Ferro, Rosalba Giugno, Piera Laura Puglisi, Alfredo Pulvirenti
MySQL Data Mining: Extending MySQL to Support Data Mining Primitives (Demo). KES (3) (2010)
Alfredo Ferro, Rosalba Giugno, Piera Laura Puglisi, Alfredo Pulvirenti
An Efficient Duplicate Record Detection Using q-Grams Array Inverted Index. DaWak (2010)
Vincenzo Bonnici, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha
Enhancing Graph Database Indexing by Suffix Tree Structure. PRIB (2010)
Alfredo Ferro, Rosalba Giugno, Piera Laura Puglisi, Alfredo Pulvirenti
BitCube: A Bottom-Up Cubing Engineering. DaWaK (2009)
Alessandro Laganà, Stefano Forte, A. Giudice, M. R. Arena, Piera Laura Puglisi, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha, Alfredo Ferro
miRò: a miRNA knowledge base. Database J. Biol. Databases Curation 2009 (2009)
Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti
Distributed randomized algorithms for low-support data mining. IPDPS (2009)
Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Alfredo Pulvirenti, Dmitry Skripin, Dennis E. Shasha
GraphFind: enhancing graph searching by low support data mining techniques. BMC Bioinform. 9 (S-4) (2008)
Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti, Cinzia Di Pietro, Michele Purrello, Marco Ragusa
Sequence similarity is more relevant than species specificity in probabilistic backtranslation. BMC Bioinform. 8 (2007)
Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Alfredo Pulvirenti, Dmitry Skripin, Gary D. Bader, Dennis E. Shasha
NetMatch: a Cytoscape plugin for searching biological networks. Bioinform. 23 (7) (2007)
Alfredo Ferro, Rosalba Giugno, Misael Mongiovì, Giuseppe Pigola, Alfredo Pulvirenti
Distributed antipole clustering for efficient data search and management in Euclidean and metric spaces. IPDPS (2006)
Domenico Cantone, Alfredo Ferro, Rosalba Giugno, Giuseppe Lo Presti, Alfredo Pulvirenti
Multiple-Winners Randomized Tournaments with Consensus for Optimization Problems in Generic Metric Spaces. WEA (2005)
Domenico Cantone, Gianluca Cincotti, Alfredo Ferro, Alfredo Pulvirenti
An Efficient Approximate Algorithm for the 1-Median Problem in Metric Spaces. SIAM J. Optim. 16 (2) (2005)
Domenico Cantone, Alfredo Ferro, Alfredo Pulvirenti, Diego Reforgiato Recupero, Dennis E. Shasha
Antipole Tree Indexing to Support Range Search and K-Nearest Neighbor Search in Metric Spaces. IEEE Trans. Knowl. Data Eng. 17 (4) (2005)
Rosalba Giugno, Alfredo Pulvirenti, Marco Ragusa, Loredana Facciola, Laura Patelmo, Valentina Di Pietro, Cinzia Di Pietro, Michele Purrello, Alfredo Ferro
Locally sensitive backtranslation based on multiple sequence alignment. CIBCB (2004)
Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti
Efficient Boundary Values Generation in General Metric Spaces for Software Component Testing. Verification: Theory and Practice (2003)
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
ANTICLUSTAL: Multiple Sequence Alignment by Antipole Clustering and Linear Approximate 1-Median Computation. CSB (2003)
Alfredo Ferro, Giuseppe Pigola, Alfredo Pulvirenti, Dennis E. Shasha
Fast Clustering and Minimum Weight Matching Algorithms for Very Large Mobile Backbone Wireless Networks. Int. J. Found. Comput. Sci. 14 (2) (2003)
Alfredo Ferro, Giovanni Gallo, Rosalba Giugno, Alfredo Pulvirenti
Best-Match Retrieval for Structured Images. IEEE Trans. Pattern Anal. Mach. Intell. 23 (7) (2001)
Alfredo Ferro, Giovanni Gallo, Rosalba Giugno
Approximate search in image database. Storage and Retrieval for Media Databases (2000)
Alfredo Ferro, Giovanni Gallo, Rosalba Giugno
Error-Tolerant Database for Structured Images. VISUAL (1999)
Enrico Pontelli, Gopal Gupta, Francesco Pulvirenti, Alfredo Ferro
Automatic Compile-time Parallelization of Prolog Programs for Dependent And-Parallelism. ICLP (1997)
Alfredo Ferro
Decision Procedures for Elementary Sublanguages of Set Theory: XII. Multilevel Syllogistic Extended with Singleton and Choice Operators. J. Autom. Reason. 7 (2) (1991)
Domenico Cantone, Vincenzo Cutello, Alfredo Ferro
Decision Procedures for Elementary Sublanguages of Set Theory. XIV. Three Languages Involving Rank Related Constructs. ISSAC (1988)
Domenico Cantone, Alfredo Ferro, Jacob T. Schwartz
Decision Procedures for Elementary Sublanguages of Set Theory. V. Multilevel Syllogistic Extended by the General Union Operator. J. Comput. Syst. Sci. 34 (1) (1987)
Alfredo Ferro, Giovanni Gallo
Groebner Bases, Ritt's Algorithm and Decision Procedures for Algebraic Theories. AAECC (1987)
Alfredo Ferro, Eugenio G. Omodeo, Jacob T. Schwartz
Decision Procedures for Some Fragments of Set Theory. CADE (1980)