Analysis of RNA Sequencing Data Using CLC Genomics Workbench

  • Chia-Hsin Liu
  • Y. Peter DiEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 2102)


RNA sequencing (RNA-seq) is a recently developed approach to perform transcriptome profiling using next-generation sequencing (NGS) technologies. Studies have shown that RNA-seq provides accurate measurement of transcript levels as well as their isoforms, which is useful to address complex transcriptomes. In addition, the increasing publicly available sequencing datasets and decreasing sequencing cost promote the use of RNA-seq for hypothesis-generating studies. In this chapter, we demonstrate how to analyze RNA-seq data and generate interpretable results using CLC genomic workbench software and perform the downstream pathway analysis using ingenuity pathway analysis (IPA).

Key words

RNA sequencing (RNA-seq) CLC Genomic Workbench Ingenuity pathway analysis (IPA) 



CLC Genomics Workbench and IPA software licensed through the Molecular Biology Information Service of the Health Sciences Library System, University of Pittsburgh, were used for data analysis.


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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2020

Authors and Affiliations

  1. 1.Department of Environmental and Occupational HealthUniversity of PittsburghPittsburghUSA

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