Giulio Pavesi

Orcid: 0000-0001-5705-6249

According to our database1, Giulio Pavesi authored at least 45 papers between 1999 and 2023.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Bibliography

2023
UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions.
Nucleic Acids Res., January, 2023

2021
Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities.
Briefings Bioinform., 2021

2020
On the NF-Y regulome as in ENCODE (2019).
PLoS Comput. Biol., 2020

2013
PscanChIP: finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments.
Nucleic Acids Res., 2013

SpliceAid-F: a database of human splicing factors and their RNA-binding sites.
Nucleic Acids Res., 2013

Motif discovery and transcription factor binding sites before and after the next-generation sequencing era.
Briefings Bioinform., 2013

A neural network based algorithm for gene expression prediction from chromatin structure.
Proceedings of the 2013 International Joint Conference on Neural Networks, 2013

2012
Cscan: finding common regulators of a set of genes by using a collection of genome-wide ChIP-seq datasets.
Nucleic Acids Res., 2012

MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa.
Nucleic Acids Res., 2012

2011
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing.
Nucleic Acids Res., 2011

A Faster Algorithm for Motif Finding in Sequences from ChIP-Seq Data.
Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2011

2010
Beyond evolutionary trees.
Nat. Comput., 2010

UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs.
Nucleic Acids Res., 2010

Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing.
Briefings Bioinform., 2010

2009
Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes.
Nucleic Acids Res., 2009

Classification of co-expressed genes from DNA regulatory regions.
Inf. Fusion, 2009

Detecting conserved coding genomic regions through signal processing of nucleotide substitution patterns.
Artif. Intell. Medicine, 2009

2008
ASPicDB: A database resource for alternative splicing analysis.
Bioinform., 2008

2007
WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences.
BMC Bioinform., 2007

Signal Processing in Comparative Genomics.
Proceedings of the Applications of Fuzzy Sets Theory, 2007

Prediction of over Represented Transcription Factor Binding Sites in Co-regulated Genes Using Whole Genome Matching Statistics.
Proceedings of the Applications of Fuzzy Sets Theory, 2007

2006
MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes.
Nucleic Acids Res., 2006

2005
Algorithms for pattern matching and discovery in RNA secondary structure.
Theor. Comput. Sci., 2005

On-line construction of compact directed acyclic word graphs.
Discret. Appl. Math., 2005

2004
Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes.
Nucleic Acids Res., 2004

An Algorithm for Finding Conserved Secondary Structure Motifs in Unaligned RNA Sequences.
J. Comput. Sci. Technol., 2004

In silico representation and discovery of transcription factor binding sites.
Briefings Bioinform., 2004

Computing with a Distributed Reaction-Diffusion Model.
Proceedings of the Machines, Computations, and Universality, 4th International Conference, 2004

A GA Approach to the Definition of Regulatory Signals in Genomic Sequences.
Proceedings of the Genetic and Evolutionary Computation, 2004

A CA Approach to Study Complex Dynamics in Asset Markets.
Proceedings of the Cellular Automata, 2004

2003
String algorithms in computational biology.
PhD thesis, 2003

Predicting Conserved Hairpin Motifs in Unaligned RNA Sequences.
Proceedings of the 15th IEEE International Conference on Tools with Artificial Intelligence (ICTAI 2003), 2003

Pattern Discovery in RNA Secondary Structure Using Affix Trees.
Proceedings of the Combinatorial Pattern Matching, 14th Annual Symposium, 2003

2002
A parallel algorithm for pattern discovery in biological sequences.
Future Gener. Comput. Syst., 2002

Controlled generation of two-dimensional patterns based on Stochastic Cellular Automata.
Future Gener. Comput. Syst., 2002

Simulation of Vegetable Populations Dynamics Based on Cellular Automata.
Proceedings of the Cellular Automata, 2002

2001
Parallel simulation of reaction-diffusion phenomena in percolation processes : A model based on cellular automata.
Future Gener. Comput. Syst., 2001

Methods for Pattern Discovery in Unaligned Biological Sequences.
Briefings Bioinform., 2001

Parallel Algorithms for the Analysis of Biological Sequences.
Proceedings of the Parallel Computing Technologies, 2001

Parallel Generation of Percolation Beds Based on Stochastic Cellular Automata.
Proceedings of the Parallel Computing Technologies, 2001

An algorithm for finding signals of unknown length in DNA sequences.
Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001

L*MASS: A Language for Situated Multi-agent Systems.
Proceedings of the AI*IA 2001: Advances in Artificial Intelligence, 2001

2000
Approximation Algorithms for String Folding Problems.
Proceedings of the Theoretical Computer Science, 2000

1999
Approximation Algorithms for Protein Folding Prediction.
Proceedings of the Tenth Annual ACM-SIAM Symposium on Discrete Algorithms, 1999

A Parallel Model Based on Cellular Automata for the Simulation of Pesticide Percolation in the Soil.
Proceedings of the Parallel Computing Technologies, 1999


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