title: ASTD: The Alternative Splicing and Transcript Diversity database.
abstract: The Alternative Splicing and Transcript Diversity database (ASTD) gives access to a vast collection of alternative transcripts that integrate transcription initiation, polyadenylation and splicing variant data. Alternative transcripts are derived from the mapping of transcribed sequences to the complete human, mouse and rat genomes using an extension of the computational pipeline developed for the ASD (Alternative Splicing Database) and ATD (Alternative Transcript Diversity) databases, which are now superseded by ASTD. For the human genome, ASTD identifies splicing variants, transcription initiation variants and polyadenylation variants in 68%, 68% and 62% of the gene set, respectively, consistent with current estimates for transcription variation. Users can access ASTD through a variety of browsing and query tools, including expression state-based queries for the identification of tissue-specific isoforms. Participating laboratories have experimentally validated a subset of ASTD-predicted alternative splice forms and alternative polyadenylation forms that were not previously reported. The ASTD database can be accessed at http://www.ebi.ac.uk/astd.
authors.affiliation: European Bioinformatics Institute, European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
authors.forename: Gautier
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authors.lastname: Koscielny
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authors.lastname: Gopalakrishnan
authors.forename: Vasudev
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authors.lastname: Kumanduri
authors.forename: Jean-Jack
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authors.lastname: Riethoven
authors.forename: Francesco
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authors.lastname: Stanley
authors.forename: Christine
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authors.lastname: Fallsehr
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authors.forename: Eoghan
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authors.lastname: Harrington
authors.forename: Stéphanie
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authors.lastname: Boué
authors.forename: Eduardo
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authors.lastname: Eyras
authors.forename: Mireya
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authors.lastname: Plass
authors.forename: Fabrice
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authors.lastname: Ritchie
authors.forename: Virginie
authors.initials: V
authors.lastname: Moucadel
authors.forename: Takeshi
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authors.lastname: Ara
authors.forename: Heike
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authors.lastname: Pospisil
authors.forename: Alexander
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authors.lastname: Herrmann
authors.forename: Jens
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authors.lastname: G Reich
authors.forename: Roderic
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authors.lastname: Guigó
authors.forename: Peer
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authors.lastname: Bork
authors.forename: Magnus von Knebel
authors.initials: Mv
authors.lastname: Doeberitz
authors.forename: Jaak
authors.initials: J
authors.lastname: Vilo
authors.forename: Winston
authors.initials: W
authors.lastname: Hide
authors.forename: Rolf
authors.initials: R
authors.lastname: Apweiler
authors.forename: Thangavel Alphonse
authors.initials: TA
authors.lastname: Thanaraj
authors.forename: Daniel
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authors.lastname: Gautheret
mesh_terms: D017398:Alternative Splicing / Q000235:genetics*; D000818:Animals; D003628:Database Management Systems; D030541:Databases, Genetic; D006801:Humans; D016247:Information Storage and Retrieval / Q000379:methods; D051379:Mice; D051381:Rats; D015203:Reproducibility of Results; D012984:Software; D014584:User-Computer Interface