Course Details

  • Date: November 6th, 2018 - November 6th, 2018
  • Time: 9:30 am - 12:00 pm
  • Location: NIH Bldg 37, Rm 6041, Rm 6107
  • Presenter(s): Xiaowen Wang (Partek)
  • Course Number: 1009

RNA-Seq Data Analysis in Partek Flow

Please bring a laptop to this class – or let us know if you need to borrow one. Please printout and bring the handout from the class website.

During this hands on training session, students will learn how to use the point-and-click interface in Partek Flow to go from raw data to experimental results for RNA-Seq analysis:

– Import data from .fastq files

– Perform QA/QC (Pre-alignment QA/QC, Post-alignment QA/QC)

– Trim bases

– Align reads to reference genome

– Quantify gene/transcript abundance

– Normalize gene counts

– Detect differentially expressed genes

– Filter a gene list

– Identify enriched KEGG pathway and/or GO terms

– Visualization:

      • Heat maps
      • Volcano plots
      • PCA scatterplot
      • Dot plots
      • Hierarchical clustering
      • Chromosome view