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Navigating public physical mapping databases.

L D Stein1

  • 1Whitehead Institute/MIT Center for Genome Research, Cambridge, Massachusetts, USA.

Current Protocols in Human Genetics
|April 23, 2008
PubMed
Summary
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This guide explains physical mapping resources and their relation to genetic and transcript maps. It offers protocols for constructing sequence-tagged site (STS) markers and mapping them using yeast artificial chromosomes (YACs).

Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Physical mapping is crucial for understanding genome organization.
  • Integrating various mapping data (physical, genetic, transcript) enhances genomic analysis.
  • Accessibility and interpretation of mapping resources are key challenges.

Purpose of the Study:

  • To provide an overview of available physical mapping resources.
  • To explain how to access and interpret these resources.
  • To detail protocols for constructing and mapping sequence-tagged site (STS) markers using yeast artificial chromosomes (YACs) and accessing expressed sequence tag (EST) marker maps.

Main Methods:

  • Compilation and presentation of information on physical mapping resources.
  • Detailed protocols for STS marker construction and YAC-based mapping.

Related Experiment Videos

  • Instructions for accessing EST marker maps.

    • Main Results:

    • Clear overviews of physical mapping resources are provided.
    • Information on map resolution, access, and interpretation is compiled.
    • Protocols for STS marker construction, YAC mapping, and EST map access are detailed.

    Conclusions:

    • This unit serves as a practical guide to physical mapping resources.
    • The provided protocols facilitate the use of YACs and ESTs in genomic studies.
    • Enhanced understanding and utilization of mapping data are achieved.