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)
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Methodological background and Genomatix Mining Station (GMS):
- Sequence statistics, mapping and mapping statistics
- Read classification
- Small variant detection
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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
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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
