Course Details

  • Date: May 7th, 2013 - May 7th, 2013
  • Time: 2:15 pm - 4:15 pm
  • Location: Building 37, Room 4041/4107
  • Presenter(s): Robert Mervis, PhD (CLC bio.)

 
This 2 hour seminar will be an interactive discussion and demonstration of the types of applications and work-flows that can be performed on deep sequencing data generated by the latest instruments from Illumina, Life Technologies (SOLiD and Ion Torrent), Roche/454 and others. Applications include the following:
 

  • Data import – Un-aligned reads (FASTQ, .sff etc.) and aligned reads (SAM/BAM)
  • Read mapping to reference sequence(s)
  • De novo assembly
  • Transcriptome assembly
  • Digital gene expression analysis by RNA Sequencing
  • Exome sequencing by target enrichment
  • Variant detection
  • ChIP Seq Analysis
  • Small RNA analysis
  • Curating reference sequences with annotations of interest
  • Working with Annotation Tracks
  • BLAST  – Find and compare genes, protein products and place contigs
  • Workflows- Visually Creating and Editing Analysis Pipelines

 
CLC bio software (Genomics Server and Genomics Workbench) is available to all researchers affiliated with CCR