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RNAseq data analysis using Galaxy

Author(s): Matthew Escobar

California State University - San Marcos

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Summary:
This is a bioinformatics exercise intended for use in a computer lab setting with life science majors.

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

Version 2.0 - published on 01 Aug 2017 doi:10.25334/Q4K379 - cite this Last public release: 4.0

Keywords

  1. Lab
  2. mapping
  3. Undergraduate
  4. workflow
  5. NIBLSE
  6. Galaxy
  7. RNAseq
  8. gene expression
  9. Instructional Setting
  10. Audience Level
  11. Advanced
  12. Activity Length
  13. Extended Project
  14. Arabidopsis
  15. C1. Role of bioinformatics
  16. C2. Computational concepts
  17. C3. Statistical concepts
  18. C5. Data retrieval

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    Contents:
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    Description

    This resource involves downloading RNAseq data sets from NCBI SRA and using Galaxy tools to identify differentially expressed genes (in this case Arabidopsis roots +/- nematode infection). Students are introduced to all major computational steps in RNAseq data analysis, including the concept of computational pipelines/workflows.

    Notes

    Version 2 includes updates from the author based on NIBLSE RRC recommendations. 

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