Publications by authors named "Alessandro Vullo"

24Publications

Ensembl 2020.

Nucleic Acids Res 2020 01;48(D1):D682-D688

European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkz966DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7145704PMC
January 2020

The Ensembl REST API: Ensembl Data for Any Language.

Bioinformatics 2015 Jan 17;31(1):143-5. Epub 2014 Sep 17.

European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD and Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD and Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btu613DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4271150PMC
January 2015

Ab initio and homology based prediction of protein domains by recursive neural networks.

BMC Bioinformatics 2009 Jun 26;10:195. Epub 2009 Jun 26.

School of Computer Science and Informatics, University College Dublin, Belfield, Dublin 4, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-10-195DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2711945PMC
June 2009

Ab initio and template-based prediction of multi-class distance maps by two-dimensional recursive neural networks.

BMC Struct Biol 2009 Jan 30;9. Epub 2009 Jan 30.

School of Computer Science and Informatics, University College Dublin, Dublin, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1472-6807-9-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2654788PMC
January 2009

Long-range information and physicality constraints improve predicted protein contact maps.

J Bioinform Comput Biol 2008 Oct;6(5):1001-20

Complex and Adaptive Systems Lab, School of Computer Science and Informatics, University College Dublin, Belfield, Dublin 4, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1142/s0219720008003783DOI Listing
October 2008

Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information.

BMC Bioinformatics 2007 Jun 14;8:201. Epub 2007 Jun 14.

Complex and Adaptive Systems Laboratory, School of Computer Science and Informatics, University College Dublin, Belfield, Dublin 4, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-8-201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1913928PMC
June 2007

Protein structural motif prediction in multidimensional phi-psi space leads to improved secondary structure prediction.

J Comput Biol 2006 Oct;13(8):1489-502

School of Computer Science and Informatics, University College Dublin, Belfield, Dublin, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1089/cmb.2006.13.1489DOI Listing
October 2006

DISULFIND: a disulfide bonding state and cysteine connectivity prediction server.

Nucleic Acids Res 2006 Jul;34(Web Server issue):W177-81

Machine Learning and Neural Networks Group, Università degli Studi di Firenze, Dipartimento di Sistemi e Informatica, Via di Santa Marta 3, 50139 Firenze, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkl266DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1538823PMC
July 2006

Spritz: a server for the prediction of intrinsically disordered regions in protein sequences using kernel machines.

Nucleic Acids Res 2006 Jul;34(Web Server issue):W164-8

School of Computer Science and Informatics, University College Dublin, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkl166DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1538873PMC
July 2006

Modular DAG-RNN architectures for assembling coarse protein structures.

J Comput Biol 2006 Apr;13(3):631-50

School of Computer Science and Informatics, University College Dublin, Belfield, Dublin 4, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1089/cmb.2006.13.631DOI Listing
April 2006

A two-stage approach for improved prediction of residue contact maps.

BMC Bioinformatics 2006 Mar 30;7:180. Epub 2006 Mar 30.

School of Computer Science and Informatics, University College Dublin, Belfield, Dublin 4, Ireland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-7-180DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1484494PMC
March 2006

A bi-recursive neural network architecture for the prediction of protein coarse contact maps.

Proc IEEE Comput Soc Bioinform Conf 2002 ;1:187-96

Department of Systems and Computer Science, University of Florence, Firenze, Italy, I-50139, Italy.

View Article

Download full-text PDF

Source
May 2005

Prediction of protein coarse contact maps.

J Bioinform Comput Biol 2003 Jul;1(2):411-31

Department of Systems and Computer Science, Università di Firenze, Via di Santa Marta 3, I-50139 Firenze Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1142/s0219720003000149DOI Listing
July 2003

Disulfide connectivity prediction using recursive neural networks and evolutionary information.

Bioinformatics 2004 Mar 22;20(5):653-9. Epub 2004 Jan 22.

Department of Systems and Computer Science, Università di Firenze Via di S. Marta 3, 50139-I Firenze, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btg463DOI Listing
March 2004