Chiara Romualdi

31 papers Journal 29Unranked 2
YearRankTypeTitle / Venue / Authors
2025 J jnl
SAMURAI: shallow analysis of copy number alterations using a reproducible and integrated bioinformatics pipeline.
Briefings Bioinform.
Sara Potente, Diego Boscarino, Dino Paladin, Sergio Marchini, Luca Beltrame, Chiara Romualdi
2023 J jnl
A pan-cancer landscape of pathogenic somatic copy number variations.
J. Biomed. Informatics
Tommaso Becchi, Luca Beltrame, Laura Mannarino, Enrica Calura, Sergio Marchini, Chiara Romualdi
2023 J jnl
benchdamic: benchmarking of differential abundance methods for microbiome data.
Bioinform.
Matteo Calgaro, Chiara Romualdi, Davide Risso, Nicola Vitulo
2022 J jnl
The power of word-frequency-based alignment-free functions: a comprehensive large-scale experimental analysis.
Bioinform.
Giuseppe Cattaneo, Umberto Ferraro Petrillo, Raffaele Giancarlo, Francesco Palini, Chiara Romualdi
2021 J jnl
PsiNorm: a scalable normalization for single-cell RNA-seq data.
Bioinform.
Matteo Borella, Graziano Martello, Davide Risso, Chiara Romualdi
2021 J jnl
The Power of Alignment-Free Histogram-based Functions: a Comprehensive Genome Scale Experimental Analysis - Version 1.
CoRR
Giuseppe Cattaneo, Umberto Ferraro Petrillo, Raffaele Giancarlo, Francesco Palini, Chiara Romualdi
2019 J jnl
SourceSet: A graphical model approach to identify primary genes in perturbed biological pathways.
PLoS Comput. Biol.
Elisa Salviato, Vera Djordjilovic, Monica Chiogna, Chiara Romualdi
2019 J jnl
metaGraphite-a new layer of pathway annotation to get metabolite networks.
Bioinform.
Gabriele Sales, Enrica Calura, Chiara Romualdi
2018 — conf
Searching for the Source of Difference: A Graphical Model Approach.
CIBB
Vera Djordjilovic, Monica Chiogna, Chiara Romualdi, Elisa Salviato
2017 — conf
Cortical Thickness variability in Multiple Sclerosis: The role of lesion segmentation and filling.
ISBI
Alessandro Palombit, Marco Castellaro, Massimiliano Calabrese, Chiara Romualdi, Francesca Benedetta Pizzini, Stefania Montemezzi, Enrico Grisan, Alessandra Bertoldo
2017 J jnl
simPATHy: a new method for simulating data from perturbed biological PATHways.
Bioinform.
Elisa Salviato, Vera Djordjilovic, Monica Chiogna, Chiara Romualdi
2016 J jnl
COLOMBOS v3.0: leveraging gene expression compendia for cross-species analyses.
Nucleic Acids Res.
Marco Moretto, Paolo Sonego, Nicolas Dierckxsens, Matteo Brilli, Luca Bianco, Daniela Ledezma-Tejeida, Socorro Gama-Castro, Marco Galardini, Chiara Romualdi, Kris Laukens, Julio Collado-Vides, Pieter Meysman, Kristof Engelen
2016 J jnl
Similarity Measures Based on the Overlap of Ranked Genes Are Effective for Comparison and Classification of Microarray Data.
J. Comput. Biol.
Fabrizio Serra, Chiara Romualdi, Federico Fogolari
2014 J jnl
timeClip: pathway analysis for time course data without replicates.
BMC Bioinform.
Paolo G. V. Martini, Gabriele Sales, Enrica Calura, Stefano Cagnin, Monica Chiogna, Chiara Romualdi
2013 J jnl
Graphite Web: web tool for gene set analysis exploiting pathway topology.
Nucleic Acids Res.
Gabriele Sales, Enrica Calura, Paolo G. V. Martini, Chiara Romualdi
2012 J jnl
MAGIA
Nucleic Acids Res.
Andrea Bisognin, Gabriele Sales, Alessandro Coppe, Stefania Bortoluzzi, Chiara Romualdi
2012 J jnl
graphite - a Bioconductor package to convert pathway topology to gene network.
BMC Bioinform.
Gabriele Sales, Enrica Calura, Duccio Cavalieri, Chiara Romualdi
2011 J jnl
Statistical Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in individual and meta-analysis studies.
BMC Bioinform.
Paolo G. V. Martini, Davide Risso, Gabriele Sales, Chiara Romualdi, Gerolamo Lanfranchi, Stefano Cagnin
2011 J jnl
The Biological Connection Markup Language: a SBGN-compliant format for visualization, filtering and analysis of biological pathways.
Bioinform.
Luca Beltrame, Enrica Calura, Razvan R. Popovici, Lisa Rizzetto, Damariz Rivero Guedez, Michele Donato, Chiara Romualdi, Sorin Draghici, Duccio Cavalieri
2010 J jnl
Gene set analysis exploiting the topology of a pathway.
BMC Syst. Biol.
Maria Sofia Massa, Monica Chiogna, Chiara Romualdi
2010 J jnl
MAGIA, a web-based tool for miRNA and Genes Integrated Analysis.
Nucleic Acids Res.
Gabriele Sales, Alessandro Coppe, Andrea Bisognin, Marta Biasiolo, Stefania Bortoluzzi, Chiara Romualdi
2009 J jnl
A comparison on effects of normalisations in the detection of differentially expressed genes.
BMC Bioinform.
Monica Chiogna, Maria Sofia Massa, Davide Risso, Chiara Romualdi
2009 J jnl
A modified LOESS normalization applied to microRNA arrays: a comparative evaluation.
Bioinform.
Davide Risso, Maria Sofia Massa, Monica Chiogna, Chiara Romualdi
2009 J jnl
A-MADMAN: Annotation-based microarray data meta-analysis tool.
BMC Bioinform.
Andrea Bisognin, Alessandro Coppe, Francesco Ferrari, Davide Risso, Chiara Romualdi, Silvio Bicciato, Stefania Bortoluzzi
2008 J jnl
Morphology and evolution of cortical lesions in multiple sclerosis. A longitudinal MRI study.
NeuroImage
Massimiliano Calabrese, Massimo Filippi, Marco Rovaris, Irene Mattisi, Valentina Bernardi, Matteo Atzori, Alice Favaretto, Luigi Barachino, Luciano Rinaldi, Chiara Romualdi, Paola Perini, Paolo Gallo
2007 J jnl
A global gene evolution analysis on
BMC Bioinform.
Nicola Vitulo, Alessandro Vezzi, Chiara Romualdi, Stefano Campanaro, Giorgio Valle
2005 J jnl
MIDAW: a web tool for statistical analysis of microarray data.
Nucleic Acids Res.
Chiara Romualdi, Nicola Vitulo, Micky Del Favero, Gerolamo Lanfranchi
2005 J jnl
RAP: a new computer program for de novo identification of repeated sequences in whole genomes.
Bioinform.
Davide Campagna, Chiara Romualdi, Nicola Vitulo, Micky Del Favero, Matej Lexa, Nicola Cannata, Giorgio Valle
2003 J jnl
TRAIT (TRAnscript Integrated Table): a knowledgebase of human skeletal muscle transcripts.
Bioinform.
Stefano Toppo, Nicola Cannata, Paolo Fontana, Chiara Romualdi, Paolo Laveder, Emanuela Bertocco, Gerolamo Lanfranchi, Giorgio Valle
2002 J jnl
Simplifying amino acid alphabets by means of a branch and bound algorithm and substitution matrices.
Bioinform.
Nicola Cannata, Stefano Toppo, Chiara Romualdi, Giorgio Valle
2001 J jnl
Differential expression of genes coding for ribosomal proteins in different human tissues.
Bioinform.
Stefania Bortoluzzi, Fabio d'Alessi, Chiara Romualdi, Gian Antonio Danieli