Raffaele A. Calogero

30 papers C 1Misc 3Journal 23Unranked 3
YearRankTypeTitle / Venue / Authors
2025 J jnl
UnifiedGreatMod: a new holistic modelling paradigm for studying biological systems on a complete and harmonious scale.
Bioinform.
Riccardo Aucello, Simone Pernice, Dora Tortarolo, Raffaele A. Calogero, Celia Herrera-Rincon, Giulia Ronchi, Stefano Geuna, Francesca Cordero, Pietro Lió, Marco Beccuti
2024 J jnl
CREDO: a friendly Customizable, REproducible, DOcker file generator for bioinformatics applications.
BMC Bioinform.
Simone Alessandri, Maria L. Ratto, Sergio Rabellino, Gabriele Piacenti, Sandro Gepiro Contaldo, Simone Pernice, Marco Beccuti, Raffaele A. Calogero, Luca Alessandrì
2023 J jnl
CONNECTOR, fitting and clustering of longitudinal data to reveal a new risk stratification system.
Bioinform.
Simone Pernice, Roberta Sirovich, Elena Grassi, Marco Viviani, Martina Ferri, Francesco Sassi, Luca Alessandrì, Dora Tortarolo, Raffaele A. Calogero, Livio Trusolino, Andrea Bertotti, Marco Beccuti, Martina Olivero, Francesca Cordero
2021 J jnl
Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service.
BMC Bioinform.
Marco Antonio Tangaro, Pietro Mandreoli, Matteo Chiara, Giacinto Donvito, Marica Antonacci, Antonio Parisi, Angelica Bianco, Angelo Romano, Daniela Manila Bianchi, Davide Cangelosi, Paolo Uva, Ivan Molineris, Vladimir Nosi, Raffaele A. Calogero, Luca Alessandrì, Elena Pedrini, Marina Mordenti, Emanuele Bonetti, Luca Sangiorgi, Graziano Pesole, Federico Zambelli
2020 J jnl
Multiple Sclerosis disease: a computational approach for investigating its drug interactions.
CoRR
Simone Pernice, Marco Beccuti, Greta Romano, Marzio Pennisi, Alessandro Maglione, Santina Cutrupi, Francesco Pappalardo, Lorenzo Capra, Giuliana Franceschinis, Massimiliano De Pierro, Gianfranco Balbo, Francesca Cordero, Raffaele A. Calogero
2019 J jnl
A computational approach based on the colored Petri net formalism for studying multiple sclerosis.
BMC Bioinform.
Simone Pernice, Marzio Pennisi, Greta Romano, Alessandro Maglione, Santina Cutrupi, Francesco Pappalardo, Gianfranco Balbo, Marco Beccuti, Francesca Cordero, Raffaele A. Calogero
2019 J jnl
BITS2018: the fifteenth annual meeting of the Italian Society of Bioinformatics.
BMC Bioinform.
Francesca Cordero, Raffaele A. Calogero, Michele Caselle
2019 — conf
Multiple Sclerosis Disease: A Computational Approach for Investigating Its Drug Interactions.
CIBB
Simone Pernice, Marco Beccuti, Greta Romano, Marzio Pennisi, Alessandro Maglione, Santina Cutrupi, Francesco Pappalardo, Lorenzo Capra, Giuliana Franceschinis, Massimiliano De Pierro, Gianfranco Balbo, Francesca Cordero, Raffaele A. Calogero
2018 C conf
ParallelHashClone: A Parallel Implementation of HashClone Suite for Clonality Assessment from NGS Data.
PDP
Greta Romano, Elisa Genuardi, Raffaele A. Calogero, Simone Ferrero
2018 J jnl
Reproducible bioinformatics project: a community for reproducible bioinformatics analysis pipelines.
BMC Bioinform.
Neha Kulkarni, Luca Alessandrì, Riccardo Panero, Maddalena Arigoni, Martina Olivero, Giulio Ferrero, Francesca Cordero, Marco Beccuti, Raffaele A. Calogero
2018 J jnl
SeqBox: RNAseq/ChIPseq reproducible analysis on a consumer game computer.
Bioinform.
Marco Beccuti, Francesca Cordero, Maddalena Arigoni, Riccardo Panero, Elvio Gilberto Amparore, Susanna Donatelli, Raffaele A. Calogero
2017 J jnl
HashClone: a new tool to quantify the minimal residual disease in B-cell lymphoma from deep sequencing data.
BMC Bioinform.
Marco Beccuti, Elisa Genuardi, Greta Romano, Luigia Monitillo, Daniela Barbero, Mario Boccadoro, Marco Ladetto, Raffaele A. Calogero, Simone Ferrero, Francesca Cordero
2015 J jnl
A versatile mathematical work-flow to explore how Cancer Stem Cell fate influences tumor progression.
BMC Syst. Biol.
Chiara Fornari, Gianfranco Balbo, Sami M. Halawani, Omar M. Ba-Rukab, Ab Rahman Ahmad, Raffaele A. Calogero, Francesca Cordero, Marco Beccuti
2015 J jnl
Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis.
BMC Bioinform.
Matteo Carrara, Josephine Lum, Francesca Cordero, Marco Beccuti, Michael Poidinger, Susanna Donatelli, Raffaele A. Calogero, Francesca Zolezzi
2014 J jnl
Chimera: a Bioconductor package for secondary analysis of fusion products.
Bioinform.
Marco Beccuti, Matteo Carrara, Francesca Cordero, Fulvio Lazzarato, Susanna Donatelli, Francesca Nadalin, Alberto Policriti, Raffaele A. Calogero
2013 J jnl
Multi-level model for the investigation of oncoantigen-driven vaccination effect.
BMC Bioinform.
Francesca Cordero, Marco Beccuti, Chiara Fornari, Stefania Lanzardo, Laura Conti, Federica Cavallo, Gianfranco Balbo, Raffaele A. Calogero
2013 J jnl
State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues?
BMC Bioinform.
Matteo Carrara, Marco Beccuti, Federica Cavallo, Susanna Donatelli, Fulvio Lazzarato, Francesca Cordero, Raffaele A. Calogero
2012 Misc conf
Digging in the RNA-seq Garbage: Evaluating the Characteristics of Unmapped RNA-seq Reads in Normal Tissues.
CISIS
Matteo Carrara, Federica Cavallo, Maddalena Arigoni, Raffaele A. Calogero
2011 — conf
Cancer stem cell based adjuvant for oncoantingen-driven vaccination.
BCB
Francesca Cordero, Stefania Lanzardo, Maddalena Arigoni, Chiara Fornari, Laura Conti, Gianfranco Balbo, Federica Cavallo, Daniele Manini, Raffaele A. Calogero
2011 — conf
Mathematical Approach to Predict the Drug Effects on Cancer Stem Cell Models.
CS2Bio@DisCoTec
Chiara Fornari, Francesca Cordero, Daniele Manini, Gianfranco Balbo, Raffaele A. Calogero
2010 Misc conf
Gene Ontology Rewritten for Computing Gene Functional Similarity.
CISIS
Alessia Visconti, Francesca Cordero, Marco Botta, Raffaele A. Calogero
2009 Misc conf
Genome-Wide Search for Splicing Defects Associated with Amyotrophic Lateral Sclerosis (ALS).
CISIS
Silvia C. Lenzken, Silvia Vivarelli, Francesca Zolezzi, Francesca Cordero, Cristina Della Beffa, Raffaele A. Calogero, Silvia Barabino
2007 J jnl
Cross platform microarray analysis for robust identification of differentially expressed genes.
BMC Bioinform.
Roberta Bosotti, Giuseppe Locatelli, Sandra Healy, Emanuela Scacheri, Luca Sartori, Ciro Mercurio, Raffaele A. Calogero, Antonella Isacchi
2007 J jnl
Kohonen neural networks and genetic classification.
Math. Comput. Model.
Daniela Bianchi, Raffaele A. Calogero, Brunello Tirozzi
2007 J jnl
oneChannelGUI: a graphical interface to Bioconductor tools, designed for life scientists who are not familiar with R language.
Bioinform.
Remo Sanges, Francesca Cordero, Raffaele A. Calogero
2005 J jnl
An integrated approach of immunogenomics and bioinformatics to identify new Tumor Associated Antigens (TAA) for mammary cancer immunological prevention.
BMC Bioinform.
Federica Cavallo, Annalisa Astolfi, Manuela Iezzi, Francesca Cordero, Pierluigi Lollini, Guido Forni, Raffaele A. Calogero
2004 J jnl
A computational search for box C/D snoRNA genes in the
Bioinform.
Maria Carmela Accardo, Ennio Giordano, Sara Riccardo, Filomena Anna Digilio, Giovanni Iazzetti, Raffaele A. Calogero, Maria Furia
2004 J jnl
RRE: a tool for the extraction of non-coding regions surrounding annotated genes from genomic datasets.
Bioinform.
Fulvio Lazzarato, Giuliana Franceschinis, Marco Botta, Francesca Cordero, Raffaele A. Calogero
1998 J jnl
STRIRED: graphical analysis of string repeats.
Bioinform.
Giovanni Iazzetti, Maria Luisa Chiusano, Raffaele A. Calogero
1998 J jnl
VIRTLAB: a virtual molecular biology laboratory.
Bioinform.
Giovanni Iazzetti, G. Santini, M. Rau, E. Bucci, Raffaele A. Calogero