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MAASE: an alternative splicing database designed for supporting splicing microarray applications.

Christina L Zheng1, Young-Soo Kwon, Hai-Ri Li

  • 1Biomedical Sciences Graduate Program, University of California-San Diego, La Jolla, CA 92093-0651, USA.

RNA (New York, N.Y.)
|October 28, 2005
PubMed
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Researchers developed the Manually Annotated Alternatively Spliced Events (MAASE) database to support mRNA isoform analysis using microarrays. This system aids in designing and analyzing splicing arrays for a better understanding of alternative splicing.

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genomics

Background:

  • Alternative splicing is a key process in higher eukaryotes, generating diverse mRNA isoforms.
  • Understanding alternative splicing regulation and mRNA isoform function is a significant post-genomic challenge.
  • Existing databases lack specific, formatted data crucial for designing mRNA isoform-sensitive microarrays.

Purpose of the Study:

  • To develop a specialized database system, MAASE, to support splicing microarray applications.
  • To provide essential sequence and functional information for alternative splicing events in a suitable format.
  • To facilitate the design and analysis of splicing microarrays for studying mRNA isoforms.

Main Methods:

  • Construction of the Manually Annotated Alternatively Spliced Events (MAASE) database system.

Related Experiment Videos

  • Development of a manual/computational annotation tool for extracting critical splicing event information.
  • Creation of a user-friendly database for convenient export of annotated data for microarray applications.

    • Main Results:

    • The MAASE database system was successfully constructed, comprising an annotation tool and a curated event database.
    • The system efficiently extracts and formats critical sequence and functional data for alternative splicing events.
    • MAASE enables convenient export of information, directly supporting splicing microarray design and data analysis.

    Conclusions:

    • The MAASE database system addresses the need for specialized data to support splicing microarray fabrication and analysis.
    • MAASE facilitates large-scale annotation efforts and integration with other alternative splicing resources.
    • This resource is expected to advance the study of mRNA isoforms and alternative splicing regulation.