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Database Commons - SpliceAid-F

SpliceAid-F

Citations: 20

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Short name SpliceAid-F
Full name
Description We retrieved experimentally validated data on 71 human RNA-binding splicing regulatory proteins and organized them into a database called 'SpliceAid-F'
URL http://www.caspur.it/SpliceAidF/
Year founded 2012
Last update & version 2012-01-01    v1.0
Availability Free to all users
University/Institution hosted University of Bari Aldo Moro
Address Bari
City Bari
Province/State
Country/Region Italy
Contact name Graziano Pesole
Contact email graziano.pesole@biologia.uniba.it
Data type(s)
Major organism(s)
Keyword(s)
  • RNA-binding splicing regulatory proteins
Publication(s)
  • SpliceAid-F: a database of human splicing factors and their RNA-binding sites. [PMID: 23118479]

    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
    Nucleic acids research 2013:41(Database issue)
    20 Citations (Google Scholar as of 2016-05-03)

    Abstract: A comprehensive knowledge of all the factors involved in splicing, both proteins and RNAs, and of their interaction network is crucial for reaching a better understanding of this process and its functions. A large part of relevant information is buried in the literature or collected in various different databases. By hand-curated screenings of literature and databases, we retrieved experimentally validated data on 71 human RNA-binding splicing regulatory proteins and organized them into a database called 'SpliceAid-F' (http://www.caspur.it/SpliceAidF/). For each splicing factor (SF), the database reports its functional domains, its protein and chemical interactors and its expression data. Furthermore, we collected experimentally validated RNA-SF interactions, including relevant information on the RNA-binding sites, such as the genes where these sites lie, their genomic coordinates, the splicing effects, the experimental procedures used, as well as the corresponding bibliographic references. We also collected information from experiments showing no RNA-SF binding, at least in the assayed conditions. In total, SpliceAid-F contains 4227 interactions, 2590 RNA-binding sites and 1141 'no-binding' sites, including information on cellular contexts and conditions where binding was tested. The data collected in SpliceAid-F can provide significant information to explain an observed splicing pattern as well as the effect of mutations in functional regulatory elements.

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Tags

RNA
Homo sapiens
RNA-binding splicing regulatory proteins

Record metadata

  • Created on: 2015-06-20
  • Curated by:
    • Lin Xia [2016-03-28]
    • Mengwei Li [2016-02-19]
    • Lin Xia [2015-11-20]
    • Lin Xia [2015-06-28]
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