Giulio Pavesi

46 papers A* 1B 7C 1Journal 27Unranked 9
YearRankTypeTitle / Venue / Authors
2023 J jnl
UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions.
Nucleic Acids Res.
Claudio Lo Giudice, Federico Zambelli, Matteo Chiara, Giulio Pavesi, Marco Antonio Tangaro, Ernesto Picardi, Graziano Pesole
2021 J jnl
Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities.
Briefings Bioinform.
Matteo Chiara, Anna Maria D'Erchia, Carmela Gissi, Caterina Manzari, Antonio Parisi, Nicoletta Resta, Federico Zambelli, Ernesto Picardi, Giulio Pavesi, David Stephen Horner, Graziano Pesole
2020 J jnl
On the NF-Y regulome as in ENCODE (2019).
PLoS Comput. Biol.
Mirko Ronzio, Andrea Bernardini, Giulio Pavesi, Roberto Mantovani, Diletta Dolfini
2013 B conf
A neural network based algorithm for gene expression prediction from chromatin structure.
IJCNN
Marco Frasca, Giulio Pavesi
2013 J jnl
Motif discovery and transcription factor binding sites before and after the next-generation sequencing era.
Briefings Bioinform.
Federico Zambelli, Graziano Pesole, Giulio Pavesi
2013 J jnl
PscanChIP: finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments.
Nucleic Acids Res.
Federico Zambelli, Graziano Pesole, Giulio Pavesi
2013 J jnl
SpliceAid-F: a database of human splicing factors and their RNA-binding sites.
Nucleic Acids Res.
Matteo Giulietti, Francesco Piva, Mattia D'Antonio, Paolo D'Onorio De Meo, Daniele Paoletti, Tiziana Castrignanò, Anna Maria D'Erchia, Ernesto Picardi, Federico Zambelli, Giovanni Principato, Giulio Pavesi, Graziano Pesole
2012 J jnl
Cscan: finding common regulators of a set of genes by using a collection of genome-wide ChIP-seq datasets.
Nucleic Acids Res.
Federico Zambelli, Gian Marco Prazzoli, Graziano Pesole, Giulio Pavesi
2012 J jnl
MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa.
Nucleic Acids Res.
Paolo D'Onorio De Meo, Mattia D'Antonio, Francesca Griggio, Renato Lupi, Massimiliano Borsani, Giulio Pavesi, Tiziana Castrignanò, Graziano Pesole, Carmela Gissi
2011 — conf
A Faster Algorithm for Motif Finding in Sequences from ChIP-Seq Data.
CIBB
Federico Zambelli, Giulio Pavesi
2011 J jnl
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing.
Nucleic Acids Res.
Pier Luigi Martelli, Mattia D'Antonio, Paola Bonizzoni, Tiziana Castrignanò, Anna Maria D'Erchia, Paolo D'Onorio De Meo, Piero Fariselli, Michele Finelli, Flavio Licciulli, Marina Mangiulli, Flavio Mignone, Giulio Pavesi, Ernesto Picardi, Raffaella Rizzi, Ivan Rossi, Alessio Valletti, Andrea Zauli, Federico Zambelli, Rita Casadio, Graziano Pesole
2010 J jnl
Beyond evolutionary trees.
Nat. Comput.
Gianluca Della Vedova, Riccardo Dondi, Tao Jiang, Giulio Pavesi, Yuri Pirola, Lusheng Wang
2010 J jnl
Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing.
Briefings Bioinform.
David Stephen Horner, Giulio Pavesi, Tiziana Castrignanò, Paolo D'Onorio De Meo, Sabino Liuni, Michael Sammeth, Ernesto Picardi, Graziano Pesole
2010 J jnl
UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs.
Nucleic Acids Res.
Giorgio Grillo, Antonio Turi, Flavio Licciulli, Flavio Mignone, Sabino Liuni, Sandro Banfi, Vincenzo Alessandro Gennarino, David Stephen Horner, Giulio Pavesi, Ernesto Picardi, Graziano Pesole
2009 J jnl
Classification of co-expressed genes from DNA regulatory regions.
Inf. Fusion
Giulio Pavesi, Giorgio Valentini
2009 J jnl
Detecting conserved coding genomic regions through signal processing of nucleotide substitution patterns.
Artif. Intell. Medicine
Matteo Ré, Giulio Pavesi
2009 J jnl
Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes.
Nucleic Acids Res.
Federico Zambelli, Graziano Pesole, Giulio Pavesi
2008 J jnl
ASPicDB: A database resource for alternative splicing analysis.
Bioinform.
Tiziana Castrignanò, Mattia D'Antonio, Anna Anselmo, Danilo Carrabino, A. D'Onorio De Meo, Anna Maria D'Erchia, Flavio Licciulli, Marina Mangiulli, Flavio Mignone, Giulio Pavesi, Ernesto Picardi, Alberto Riva, Raffaella Rizzi, Paola Bonizzoni, Graziano Pesole
2007 — conf
Prediction of over Represented Transcription Factor Binding Sites in Co-regulated Genes Using Whole Genome Matching Statistics.
WILF
Giulio Pavesi, Federico Zambelli
2007 — conf
Signal Processing in Comparative Genomics.
WILF
Matteo Ré, Giulio Pavesi
2007 J jnl
WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences.
BMC Bioinform.
Giulio Pavesi, Federico Zambelli, Graziano Pesole
2006 J jnl
MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes.
Nucleic Acids Res.
Giulio Pavesi, Paolo Mereghetti, Federico Zambelli, Marco Stefani, Giancarlo Mauri, Graziano Pesole
2005 J jnl
Algorithms for pattern matching and discovery in RNA secondary structure.
Theor. Comput. Sci.
Giancarlo Mauri, Giulio Pavesi
2005 J jnl
On-line construction of compact directed acyclic word graphs.
Discret. Appl. Math.
Shunsuke Inenaga, Hiromasa Hoshino, Ayumi Shinohara, Masayuki Takeda, Setsuo Arikawa, Giancarlo Mauri, Giulio Pavesi
2004 — conf
A CA Approach to Study Complex Dynamics in Asset Markets.
ACRI
Stefania Bandini, Sara Manzoni, Ahmad Naimzada, Giulio Pavesi
2004 — conf
A GA Approach to the Definition of Regulatory Signals in Genomic Sequences.
GECCO (1)
Giancarlo Mauri, Roberto Mosca, Giulio Pavesi
2004 J jnl
An Algorithm for Finding Conserved Secondary Structure Motifs in Unaligned RNA Sequences.
J. Comput. Sci. Technol.
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
2004 C conf
Computing with a Distributed Reaction-Diffusion Model.
MCU
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi, Carla Simone
2004 J jnl
In silico representation and discovery of transcription factor binding sites.
Briefings Bioinform.
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
2004 J jnl
Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes.
Nucleic Acids Res.
Giulio Pavesi, Paolo Mereghetti, Giancarlo Mauri, Graziano Pesole
2003 B conf
Pattern Discovery in RNA Secondary Structure Using Affix Trees.
CPM
Giancarlo Mauri, Giulio Pavesi
2003 B conf
Predicting Conserved Hairpin Motifs in Unaligned RNA Sequences.
ICTAI
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
2003 — —
String algorithms in computational biology.
Giulio Pavesi
2002 J jnl
A parallel algorithm for pattern discovery in biological sequences.
Future Gener. Comput. Syst.
Giancarlo Mauri, Giulio Pavesi
2002 J jnl
Controlled generation of two-dimensional patterns based on Stochastic Cellular Automata.
Future Gener. Comput. Syst.
Stefania Bandini, Giulio Pavesi
2002 — conf
Simulation of Vegetable Populations Dynamics Based on Cellular Automata.
ACRI
Stefania Bandini, Giulio Pavesi
2001 — conf
An algorithm for finding signals of unknown length in DNA sequences.
ISMB (Supplement of Bioinformatics)
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
2001 — conf
L*MASS: A Language for Situated Multi-agent Systems.
AI*IA
Stefania Bandini, Sara Manzoni, Giulio Pavesi, Carla Simone
2001 J jnl
Methods for Pattern Discovery in Unaligned Biological Sequences.
Briefings Bioinform.
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
2001 B conf
On-Line Construction of Compact Directed Acyclic Word Graphs.
CPM
Shunsuke Inenaga, Hiromasa Hoshino, Ayumi Shinohara, Masayuki Takeda, Setsuo Arikawa, Giancarlo Mauri, Giulio Pavesi
2001 B conf
Parallel Algorithms for the Analysis of Biological Sequences.
PaCT
Giancarlo Mauri, Giulio Pavesi
2001 B conf
Parallel Generation of Percolation Beds Based on Stochastic Cellular Automata.
PaCT
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi
2001 J jnl
Parallel simulation of reaction-diffusion phenomena in percolation processes : A model based on cellular automata.
Future Gener. Comput. Syst.
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi, Carla Simone
2000 — conf
Approximation Algorithms for String Folding Problems.
IFIP TCS
Giancarlo Mauri, Giulio Pavesi
1999 B conf
A Parallel Model Based on Cellular Automata for the Simulation of Pesticide Percolation in the Soil.
PaCT
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi, Carla Simone
1999 A* conf
Approximation Algorithms for Protein Folding Prediction.
SODA
Giancarlo Mauri, Giulio Pavesi, Antonio Piccolboni