Genome Sequencing and Analysis Group

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The Genome Sequencing and Analysis Group (GSA) in Medical and Population Genetics at the Broad Institute is a team of computational biologists, software engineers, and hosted students and researchers developing algorithms for next generation DNA sequencers for medical and population genetics and cancer applications, as well as applying these algorithms to answer fundamental scientific questions. GSA has extensive experience with processing of next-generation DNA sequencer data as well as genotyping and validation data along with downstream analysis of this data for medical and population genetics studies. The method development arm of GSA has created a powerful framework in the The Genome Analysis Toolkit for analysis of next-generation sequencing data and analysis of variation discovered by NGS. These tools are now widely used in many NGS projects, including the 1000 Genomes Project, The Cancer Genome Atlas, the Broad's production sequencing pipeline, as well as at many other sequencing centers and individual labs with sequencing machines.

See the GSA Public Drop Box for an regularly updated collection of slides covering all GSA-related projects. The MPG Next-Generation DNA sequencing tutorials contain excellent background material on NGS data processing and analysis.

The Genome Analysis Toolkit (GATK)

See the following page for detailed information about our programming framework and the tools built upon it: The Genome Analysis Toolkit (GATK), as well as its a companion process management framework: GATK-Queue.

Group members

  • Group Leader
  • Production data processing
    • Khalid Shakir, Team Lead
    • Matthew Hanna
    • David Roazen

View the list of former GSA group members or current and previous job opportunities in GSA

Useful GSA-related resources


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