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RNA-seq Analysis

Author(s): Bill Morgan1, Matthew Reeder2

1. The College of Wooster 2. Ohio State University

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Summary:
In this computer lab module, students learn how to process an RNA-seq data set to identify differentially expressed genes (DEGs). The samples for this data set were collected from yeast cells expressing either a control gene or a pathogen...

Licensed under CC Attribution-ShareAlike 4.0 International according to these terms

Version 2.0 - published on 05 Jun 2017

Keywords

  1. Lab
  2. RNA
  3. sequencing
  4. Undergraduate
  5. NIBLSE
  6. incubators
  7. RNAseq
  8. Instructional Setting
  9. Audience Level
  10. Activity Length
  11. More than 1 hour
  12. C4. Bioinformatics tools
  13. C5. Data retrieval
  14. Reviewed at NIBLSE
  15. differentially expressed genes

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    Description

    In this computer lab module, students learn how to process an RNA-seq data set to identify differentially expressed genes (DEGs). The samples for this data set were collected from yeast cells expressing either a control gene or a pathogen effector gene. The goal is to identify potential cellular targets of the pathogen protein based on the global transcriptional response. Students access and analyze the RNA-seq data set using a publicly available Galaxy server. After checking and processing the data for quality control, they then map the reads to the yeast reference genome and subsequently identify genes that are differentially expressed between the control and experimental samples. 

    Notes

    The publication was updated to include a new license. 

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