Skip to main content

HSLS MolBio Workshops: RNA-Seq & CLC Genomics

Information about hands-on bioinformatics classes

Overview

This hands-on workshop provides an introduction to RNA-seq analysis using the library-licensed CLC Genomics Workbench.

Participants will learn how to (1) align RNA-seq data to a reference genome, (2) calculate known genes and transcript expressions, & (3) perform differential expression analysis.

Workshop Content

Massively parallel RNA sequencing, commonly known as RNA-seq, provides a more detailed picture of transcriptomes compared to microarray profiling. As Next-Generation Sequencing technologies are becoming faster and less expensive, RNA-seq is now the primary assay of choice for researchers investigating the abundance and diversity of RNA transcripts. Analysis of the large-scale data sets generated by a typical RNA-seq experiment is challenging as it demands access to powerful computers and researcher training to run sophisticated bioinformatics software packages. This workshop will teach how to analyze sample RNA-seq data using CLCbio Genomics Workbench software and the CLCbio Genomics Server installed at the PittCRC's HTC Cluster. The results will be further analyzed using BaseSpace Correlation Engine software.

Participants will gain hands-on experience to:

  • Download Illumina reads from NCBI Sequence Read Archive (SRA)/European Nucleotide Archive (ENA)
  • Align reads to the human reference genome
  • Estimate expression of known genes and transcripts
  • Perform differential expression analysis at the gene and transcript isoform level

 

References

The Health Sciences Library System supports the Health Sciences at the University of Pittsburgh.

© 1996 - 2014 Health Sciences Library System, University of Pittsburgh. All rights reserved.
Contact the Webmaster

University of Pittsburgh Libraries