ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing (Articolo in rivista)

Type
Label
  • ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing (Articolo in rivista) (literal)
Anno
  • 2011-01-01T00:00:00+01:00 (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#doi
  • 10.1093/nar/gkq1073 (literal)
Alternative label
  • Pier L. Martelli1, Mattia D'Antonio2, Paola Bonizzoni3, Tiziana Castrignano` 2, Anna M. D'Erchia4, Paolo D'Onorio De Meo2, Piero Fariselli1, Michele Finelli5, Flavio Licciulli6, Marina Mangiulli4, Flavio Mignone7, Giulio Pavesi8, Ernesto Picardi3, Raffaella Rizzi3, Ivan Rossi5, Alessio Valletti4, Andrea Zauli5, Federico Zambelli8, Rita Casadio1,* and Graziano Pesole4,9 (2011)
    ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing
    in Nucleic acids research (Online)
    (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#autori
  • Pier L. Martelli1, Mattia D'Antonio2, Paola Bonizzoni3, Tiziana Castrignano` 2, Anna M. D'Erchia4, Paolo D'Onorio De Meo2, Piero Fariselli1, Michele Finelli5, Flavio Licciulli6, Marina Mangiulli4, Flavio Mignone7, Giulio Pavesi8, Ernesto Picardi3, Raffaella Rizzi3, Ivan Rossi5, Alessio Valletti4, Andrea Zauli5, Federico Zambelli8, Rita Casadio1,* and Graziano Pesole4,9 (literal)
Pagina inizio
  • 80 (literal)
Pagina fine
  • 85 (literal)
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  • 39 (literal)
Rivista
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  • PubMe (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#affiliazioni
  • 1 Biocomputing Group, University of Bologna, Bologna 40126 2 Consorzio Interuniversitario per le Applicazioni di Supercalcolo per Universita` e Ricerca (CASPUR), Rome 00185 3 DISCo, University of Milan-Bicocca, Milan, 20135 4 Dipartimento di Biochimica e Biologia Molecolare, University of Bari, Bari 70126 5 BioDec srl, Casalecchio di Reno, Bologna 40033 6 Istituto Tecnologie Biomediche, Consiglio Nazionale delle Ricerche, Bari 70126 7 Dipartimento di Chimica Strutturale e Stereochimica Inorganica, University of Milan 8 Dipartimento di Scienze Biomolecolari e Biotecnologie, University of Milan, Milan 20133 9 Istituto Biomembrane e Bioenergetica, Consiglio Nazionale delle Ricerche, Bari 70125, Italy (literal)
Titolo
  • ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing (literal)
Abstract
  • Alternative splicing is emerging as a major mechanism for the expansion of the transcriptome and proteome diversity, particularly in human and other vertebrates. However, the proportion of alternative transcripts and proteins actually endowed with functional activity is currently highly debated. We present here a new release of ASPicDB which now provides a unique annotation resource of human protein variants generated by alternative splicing. A total of 256 939 protein variants from 17 191 multi-exon genes have been extensively annotated through state of the art machine learning tools providing information of the protein type (globular and transmembrane), localization, presence of PFAM domains, signal peptides, GPIanchor propeptides, transmembrane and coiledcoil segments. Furthermore, full-length variants can be now specifically selected based on the annotation of CAGE-tags and polyA signal and/or polyA sites, marking transcription initiation and termination sites, respectively. The retrieval can be carried out at gene, transcript, exon, protein or splice site level allowing the selection of data sets fulfilling one or more features settled by the user. The retrieval interface also enables the selection of protein variants showing specific differences in the annotated features. ASPicDB is available at http://www .caspur.it/ASPicDB/. (literal)
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