Chiara Romualdi

According to our database, Chiara Romualdi authored at least 31 papers between 2001 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

A pan-cancer landscape of pathogenic somatic copy number variations.

Tommaso Becchi, Luca Beltrame, Laura Mannarino, Enrica Calura, Sergio Marchini, Chiara Romualdi

J. Biomed. Informatics, November, 2023

benchdamic: benchmarking of differential abundance methods for microbiome data.

Matteo Calgaro, Chiara Romualdi, Davide Risso, Nicola Vitulo

Bioinform., January, 2023

2022

The power of word-frequency-based alignment-free functions: a comprehensive large-scale experimental analysis.

Giuseppe Cattaneo, Umberto Ferraro Petrillo, Raffaele Giancarlo, Francesco Palini, Chiara Romualdi

Bioinform., 2022

2021

The Power of Alignment-Free Histogram-based Functions: a Comprehensive Genome Scale Experimental Analysis - Version 1.

Giuseppe Cattaneo, Umberto Ferraro Petrillo, Raffaele Giancarlo, Francesco Palini, Chiara Romualdi

CoRR, 2021

PsiNorm: a scalable normalization for single-cell RNA-seq data.

Matteo Borella, Graziano Martello, Davide Risso, Chiara Romualdi

Bioinform., 2021

2019

SourceSet: A graphical model approach to identify primary genes in perturbed biological pathways.

Elisa Salviato, Vera Djordjilovic, Monica Chiogna, Chiara Romualdi

PLoS Comput. Biol., 2019

metaGraphite-a new layer of pathway annotation to get metabolite networks.

Gabriele Sales, Enrica Calura, Chiara Romualdi

Bioinform., 2019

2018

Searching for the Source of Difference: A Graphical Model Approach.

Vera Djordjilovic, Monica Chiogna, Chiara Romualdi, Elisa Salviato

Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2018

2017

simPATHy: a new method for simulating data from perturbed biological PATHways.

Elisa Salviato, Vera Djordjilovic, Monica Chiogna, Chiara Romualdi

Bioinform., 2017

Cortical Thickness variability in Multiple Sclerosis: The role of lesion segmentation and filling.

Alessandro Palombit, Marco Castellaro, Massimiliano Calabrese, Chiara Romualdi, Francesca Benedetta Pizzini, Stefania Montemezzi, Enrico Grisan, Alessandra Bertoldo

Proceedings of the 14th IEEE International Symposium on Biomedical Imaging, 2017

2016

COLOMBOS v3.0: leveraging gene expression compendia for cross-species analyses.

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

Nucleic Acids Res., 2016

Similarity Measures Based on the Overlap of Ranked Genes Are Effective for Comparison and Classification of Microarray Data.

Fabrizio Serra, Chiara Romualdi, Federico Fogolari

J. Comput. Biol., 2016

2014

timeClip: pathway analysis for time course data without replicates.

Paolo G. V. Martini, Gabriele Sales, Enrica Calura, Stefano Cagnin, Monica Chiogna, Chiara Romualdi

BMC Bioinform., 2014

2013

Graphite Web: web tool for gene set analysis exploiting pathway topology.

Gabriele Sales, Enrica Calura, Paolo G. V. Martini, Chiara Romualdi

Nucleic Acids Res., 2013

2012

MAGIA²: from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update).

Andrea Bisognin, Gabriele Sales, Alessandro Coppe, Stefania Bortoluzzi, Chiara Romualdi

Nucleic Acids Res., 2012

graphite - a Bioconductor package to convert pathway topology to gene network.

Gabriele Sales, Enrica Calura, Duccio Cavalieri, Chiara Romualdi

BMC Bioinform., 2012

2011

Statistical Test of Expression Pattern (STEPath): a new strategy to integrate gene expression data with genomic information in individual and meta-analysis studies.

Paolo G. V. Martini, Davide Risso, Gabriele Sales, Chiara Romualdi, Gerolamo Lanfranchi, Stefano Cagnin

BMC Bioinform., 2011

<i>parmigene</i> - a parallel R package for mutual information estimation and gene network reconstruction.

Gabriele Sales, Chiara Romualdi

Bioinform., 2011

The Biological Connection Markup Language: a SBGN-compliant format for visualization, filtering and analysis of biological pathways.

Luca Beltrame, Enrica Calura, Razvan R. Popovici, Lisa Rizzetto, Damariz Rivero Guedez, Michele Donato, Chiara Romualdi, Sorin Draghici, Duccio Cavalieri

Bioinform., 2011

2010

MAGIA, a web-based tool for miRNA and Genes Integrated Analysis.

Gabriele Sales, Alessandro Coppe, Andrea Bisognin, Marta Biasiolo, Stefania Bortoluzzi, Chiara Romualdi

Nucleic Acids Res., 2010

Gene set analysis exploiting the topology of a pathway.

Maria Sofia Massa, Monica Chiogna, Chiara Romualdi

BMC Syst. Biol., 2010

2009

A comparison on effects of normalisations in the detection of differentially expressed genes.

Monica Chiogna, Maria Sofia Massa, Davide Risso, Chiara Romualdi

BMC Bioinform., 2009

A-MADMAN: Annotation-based microarray data meta-analysis tool.

Andrea Bisognin, Alessandro Coppe, Francesco Ferrari, Davide Risso, Chiara Romualdi, Silvio Bicciato, Stefania Bortoluzzi

BMC Bioinform., 2009

A modified LOESS normalization applied to microRNA arrays: a comparative evaluation.

Davide Risso, Maria Sofia Massa, Monica Chiogna, Chiara Romualdi

Bioinform., 2009

2008

Morphology and evolution of cortical lesions in multiple sclerosis. A longitudinal MRI study.

Massimiliano Calabrese, Massimo Filippi, Marco Rovaris, Irene Mattisi, Valentina Bernardi, Matteo Atzori, Alice Favaretto, Luigi Barachino, Luciano Rinaldi, Chiara Romualdi, Paola Perini, Paolo Gallo

NeuroImage, 2008

2007

A global gene evolution analysis on <i>Vibrionaceae </i>family using phylogenetic profile.

Nicola Vitulo, Alessandro Vezzi, Chiara Romualdi, Stefano Campanaro, Giorgio Valle

BMC Bioinform., 2007

2005

MIDAW: a web tool for statistical analysis of microarray data.

Chiara Romualdi, Nicola Vitulo, Micky Del Favero, Gerolamo Lanfranchi

Nucleic Acids Res., 2005

RAP: a new computer program for de novo identification of repeated sequences in whole genomes.

Davide Campagna, Chiara Romualdi, Nicola Vitulo, Micky Del Favero, Matej Lexa, Nicola Cannata, Giorgio Valle

Bioinform., 2005

2003

TRAIT (TRAnscript Integrated Table): a knowledgebase of human skeletal muscle transcripts.

Stefano Toppo, Nicola Cannata, Paolo Fontana, Chiara Romualdi, Paolo Laveder, Emanuela Bertocco, Gerolamo Lanfranchi, Giorgio Valle

Bioinform., 2003

2002

Simplifying amino acid alphabets by means of a branch and bound algorithm and substitution matrices.

Nicola Cannata, Stefano Toppo, Chiara Romualdi, Giorgio Valle

Bioinform., 2002

2001

Differential expression of genes coding for ribosomal proteins in different human tissues.

Stefania Bortoluzzi, Fabio d'Alessi, Chiara Romualdi, Gian Antonio Danieli

Bioinform., 2001