Giulio Pavesi

Publication Activity (10 Years)

Years Active: 1999-2023
Publications (10 Years): 3

Top Topics

Genomic Sequences

Gene Expression

Top Venues

Nucleic Acids Res.

Briefings Bioinform.

PLoS Comput. Biol.

Publications

Claudio Lo Giudice, Federico Zambelli, Matteo Chiara, Giulio Pavesi, Marco Antonio Tangaro, Ernesto Picardi, Graziano Pesole
UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions. Nucleic Acids Res. 51 (D1) (2023)
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
Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities. Briefings Bioinform. 22 (2) (2021)
Mirko Ronzio, Andrea Bernardini, Giulio Pavesi, Roberto Mantovani, Diletta Dolfini
On the NF-Y regulome as in ENCODE (2019). PLoS Comput. Biol. 16 (12) (2020)
Federico Zambelli, Graziano Pesole, Giulio Pavesi
Motif discovery and transcription factor binding sites before and after the next-generation sequencing era. Briefings Bioinform. 14 (2) (2013)
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
SpliceAid-F: a database of human splicing factors and their RNA-binding sites. Nucleic Acids Res. 41 (Database-Issue) (2013)
Marco Frasca, Giulio Pavesi
A neural network based algorithm for gene expression prediction from chromatin structure. IJCNN (2013)
Federico Zambelli, Graziano Pesole, Giulio Pavesi
PscanChIP: finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments. Nucleic Acids Res. 41 (Webserver-Issue) (2013)
Paolo D'Onorio De Meo, Mattia D'Antonio, Francesca Griggio, Renato Lupi, Massimiliano Borsani, Giulio Pavesi, Tiziana Castrignanò, Graziano Pesole, Carmela Gissi
MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa. Nucleic Acids Res. 40 (Database-Issue) (2012)
Federico Zambelli, Gian Marco Prazzoli, Graziano Pesole, Giulio Pavesi
Cscan: finding common regulators of a set of genes by using a collection of genome-wide ChIP-seq datasets. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
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
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing. Nucleic Acids Res. 39 (Database-Issue) (2011)
Federico Zambelli, Giulio Pavesi
A Faster Algorithm for Motif Finding in Sequences from ChIP-Seq Data. CIBB (2011)
David Stephen Horner, Giulio Pavesi, Tiziana Castrignanò, Paolo D'Onorio De Meo, Sabino Liuni, Michael Sammeth, Ernesto Picardi, Graziano Pesole
Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing. Briefings Bioinform. 11 (2) (2010)
Giorgio Grillo, Antonio Turi, Flavio Licciulli, Flavio Mignone, Sabino Liuni, Sandro Banfi, Vincenzo Alessandro Gennarino, David Stephen Horner, Giulio Pavesi, Ernesto Picardi, Graziano Pesole
UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs. Nucleic Acids Res. 38 (Database-Issue) (2010)
Gianluca Della Vedova, Riccardo Dondi, Tao Jiang, Giulio Pavesi, Yuri Pirola, Lusheng Wang
Beyond evolutionary trees. Nat. Comput. 9 (2) (2010)
Federico Zambelli, Graziano Pesole, Giulio Pavesi
Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes. Nucleic Acids Res. 37 (Web-Server-Issue) (2009)
Matteo Ré, Giulio Pavesi
Detecting conserved coding genomic regions through signal processing of nucleotide substitution patterns. Artif. Intell. Medicine 45 (2-3) (2009)
Giulio Pavesi, Giorgio Valentini
Classification of co-expressed genes from DNA regulatory regions. Inf. Fusion 10 (3) (2009)
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
ASPicDB: A database resource for alternative splicing analysis. Bioinform. 24 (10) (2008)
Matteo Ré, Giulio Pavesi
Signal Processing in Comparative Genomics. WILF (2007)
Giulio Pavesi, Federico Zambelli, Graziano Pesole
WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences. BMC Bioinform. 8 (2007)
Giulio Pavesi, Federico Zambelli
Prediction of over Represented Transcription Factor Binding Sites in Co-regulated Genes Using Whole Genome Matching Statistics. WILF (2007)
Giulio Pavesi, Paolo Mereghetti, Federico Zambelli, Marco Stefani, Giancarlo Mauri, Graziano Pesole
MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Giancarlo Mauri, Giulio Pavesi
Algorithms for pattern matching and discovery in RNA secondary structure. Theor. Comput. Sci. 335 (1) (2005)
Shunsuke Inenaga, Hiromasa Hoshino, Ayumi Shinohara, Masayuki Takeda, Setsuo Arikawa, Giancarlo Mauri, Giulio Pavesi
On-line construction of compact directed acyclic word graphs. Discret. Appl. Math. 146 (2) (2005)
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi, Carla Simone
Computing with a Distributed Reaction-Diffusion Model. MCU (2004)
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
An Algorithm for Finding Conserved Secondary Structure Motifs in Unaligned RNA Sequences. J. Comput. Sci. Technol. 19 (1) (2004)
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
In silico representation and discovery of transcription factor binding sites. Briefings Bioinform. 5 (3) (2004)
Stefania Bandini, Sara Manzoni, Ahmad Naimzada, Giulio Pavesi
A CA Approach to Study Complex Dynamics in Asset Markets. ACRI (2004)
Giancarlo Mauri, Roberto Mosca, Giulio Pavesi
A GA Approach to the Definition of Regulatory Signals in Genomic Sequences. GECCO (1) (2004)
Giulio Pavesi, Paolo Mereghetti, Giancarlo Mauri, Graziano Pesole
Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Giancarlo Mauri, Giulio Pavesi
Pattern Discovery in RNA Secondary Structure Using Affix Trees. CPM (2003)
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
Predicting Conserved Hairpin Motifs in Unaligned RNA Sequences. ICTAI (2003)
Giancarlo Mauri, Giulio Pavesi
A parallel algorithm for pattern discovery in biological sequences. Future Gener. Comput. Syst. 18 (6) (2002)
Stefania Bandini, Giulio Pavesi
Controlled generation of two-dimensional patterns based on Stochastic Cellular Automata. Future Gener. Comput. Syst. 18 (7) (2002)
Stefania Bandini, Giulio Pavesi
Simulation of Vegetable Populations Dynamics Based on Cellular Automata. ACRI (2002)
Giancarlo Mauri, Giulio Pavesi
Parallel Algorithms for the Analysis of Biological Sequences. PaCT (2001)
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
An algorithm for finding signals of unknown length in DNA sequences. ISMB (Supplement of Bioinformatics) (2001)
Shunsuke Inenaga, Hiromasa Hoshino, Ayumi Shinohara, Masayuki Takeda, Setsuo Arikawa, Giancarlo Mauri, Giulio Pavesi
On-Line Construction of Compact Directed Acyclic Word Graphs. CPM (2001)
Stefania Bandini, Sara Manzoni, Giulio Pavesi, Carla Simone
L*MASS: A Language for Situated Multi-agent Systems. AI*IA (2001)
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi, Carla Simone
Parallel simulation of reaction-diffusion phenomena in percolation processes : A model based on cellular automata. Future Gener. Comput. Syst. 17 (6) (2001)
Giulio Pavesi, Giancarlo Mauri, Graziano Pesole
Methods for Pattern Discovery in Unaligned Biological Sequences. Briefings Bioinform. 2 (4) (2001)
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi
Parallel Generation of Percolation Beds Based on Stochastic Cellular Automata. PaCT (2001)
Giancarlo Mauri, Giulio Pavesi
Approximation Algorithms for String Folding Problems. IFIP TCS (2000)
Stefania Bandini, Giancarlo Mauri, Giulio Pavesi, Carla Simone
A Parallel Model Based on Cellular Automata for the Simulation of Pesticide Percolation in the Soil. PaCT (1999)
Giancarlo Mauri, Giulio Pavesi, Antonio Piccolboni
Approximation Algorithms for Protein Folding Prediction. SODA (1999)