Course Details

  • Date: May 1st, 2013 - May 1st, 2013
  • Time: 9:00 am - 5:00 pm
  • Location: 6116 Executive Blvd., Room 4075
  • Presenter(s): Susan Dombrowski (Genomatix)

Intended Audience: This day-long training course is intended for Users who want to apply Next Generation Sequencing methodologies for DNA-Seq, Methyl-Seq, small RNA-Seq, RNA-Seq and ChIP-Seq studies.  All analyses are done on the Genomatix Mining Station (GMS) and Genomatix Genome Analyzer (GGA)

  1. Methodological background and Genomatix Mining Station (GMS):

    • Sequence statistics, mapping and mapping statistics
    • Read classification
    • Small variant detection
  2. Methodological background and hands-on examples using Genomatix Genome Analyzer (GGA):

    • SNP analysis
    • Copy Number Variation (CNV) analysis
    • Methyl-Seq: Data Visualization
    • Small RNA-Seq and RNA-Seq: Expression Analysis
    • ChIP-Seq: Peak detection and analysis:

      • TF binding site analysis in ChIP peaks
      • De novo motif detection
      • Next-neighbor analysis and regulatory target prediction for ChIP regions
    • Meta analysis of different data sets