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Related Experiment Videos

ASD: a bioinformatics resource on alternative splicing.

Stefan Stamm1, Jean-Jack Riethoven, Vincent Le Texier

  • 1European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

Nucleic Acids Research
|December 31, 2005
PubMed
Summary
This summary is machine-generated.

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The upgraded Alternative Splicing Database (ASD) enhances understanding of mammalian gene expression by integrating computational and manual data on alternative splicing events and regulatory elements.

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Alternative splicing is a key regulatory mechanism in mammalian gene expression.
  • The Alternative Splicing Database (ASD) consortium systematically collects and annotates alternative splicing data.
  • Previous ASD versions provided foundational data on splicing events.

Purpose of the Study:

  • To present the continuation and upgrade of the Alternative Splicing Database (ASD).
  • To integrate computationally and manually generated data for a comprehensive resource.
  • To provide enhanced tools for analyzing alternative splicing.

Main Methods:

  • Development of AltSplice: a value-added database of computationally delineated alternative splicing events.
  • Inclusion of AEdb: a manually curated, literature-based dataset of alternatively spliced exons and regulatory elements.

Related Experiment Videos

  • Integration with Ensembl genome annotation project as a Distributed Annotation System (DAS) resource.

    • Main Results:

    • AltSplice data includes alternatively spliced introns/exons, events, isoform patterns, and peptide sequences, annotated with biological features.
    • AEdb contains sequence properties, splicing event enumerations, regulatory element characterization, and minigene constructs.
    • The ASD workbench offers analysis tools for splicing signals, regulatory elements, and exon/start codon prediction.

    Conclusions:

    • The upgraded ASD provides a comprehensive, integrated resource for alternative splicing research.
    • Enhanced data annotation and analysis tools facilitate deeper understanding of gene expression regulation.
    • Integration with genome browsers improves accessibility and utility for the scientific community.