STAMP: Extensions to the STADEN sequence analysis package for high throughput interactive microsatellite marker design
2009

STAMP: New Tools for Microsatellite Marker Design

publication Evidence: high

Author Information

Author(s): Lars Kraemer, Bánk Beszteri, Steffi Gäbler-Schwarz, Christoph Held, Florian Leese, Christoph Mayer, Kevin Pöhlmann, Stephan Frickenhaus

Hypothesis

The study aims to enhance the STADEN sequence analysis package with new tools for high-throughput microsatellite marker design.

Conclusion

The STADEN package is significantly improved by the new modules, making it a highly flexible and efficient tool for microsatellite marker design.

Supporting Evidence

  • The new modules integrate state-of-the-art software for tandem repeat detection and primer design.
  • The software allows for flexible combinations of manual and automated analysis steps.
  • The efficiency of the automated marker design workflow was confirmed in three laboratory projects.

Takeaway

This study created new software tools to help scientists design DNA markers more easily and quickly, which is important for studying genetics.

Methodology

The study involved developing extension modules for the STADEN package that integrate various tools for tandem repeat detection and primer design.

Limitations

The study does not specify limitations but acknowledges that existing tools have weaknesses that motivated the development of the new modules.

Digital Object Identifier (DOI)

10.1186/1471-2105-10-41

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