Course Details

  • Date: February 12th, 2013 - February 12th, 2013
  • Time: 2:15 pm - 3:30 pm
  • Location: Building 37, Room 4041/4107
  • Presenter(s): Yongmei Zhao (CCR-SF IFX Group)

 
This lecture will provide an overview of Illumina sequencing technology as implemented at the CCR Sequencing Facility (SF). It will outline the data and sample QC and analysis workflow performed by the facility and will provide guidance for understanding the files/data provided by the SF.  Subsequent bioinformatics options and the initial project submission process will be reviewed. The topics covered will include:
 

Overview of Illumina Sequencing Technologies

  • Library preparation
  • Multiplex and barcodes
  • Cluster amplification and sequencing

Data and Sample QC and Analysis Steps

  •   QC and analysis workflows
  •   QC metrics

Illumina Data File Structure and Format

  •   Basecall and alignment files
  •   SAM/BAM manipulation
  •   Variants call data files

Overview of Illumina BaseSpace

  •   BaseSpace highlights
  •   BaseSpace applications