RNAseq data analysis using Galaxy
Author(s): Matthew Escobar1, Sam S Donovan2, Irina Makarevitch3, Bill Morgan4, Sabrina Robertson5
1. California State University San Marcos 2. University of Pittsburgh 3. Hamline University 4. The College of Wooster 5. North Carolina State University
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Description
This resource involves downloading RNAseq data sets from the NCBI Sequence Read Archive (SRA) and using Galaxy tools to identify differentially expressed genes. Different data sets and experimental questions can be explored. Students are introduced to all major computational steps in RNAseq data analysis, including the concept of computational pipelines/workflows.
Notes
Revisions to previous version: In addition to minor clarification of the tutorial instructions, embedded questions were added to prompt student engagement and reflection. The grading key for tutorial questions was correspondingly updated. The PowerPoint presentation was revised to include flow diagrams of the overall procedure. Finally, the Instructor Background document was significantly revised; most notably the section on alternative RNA-seq data sets was expanded to suggest additional options.
Cite this work
Researchers should cite this work as follows:
- Escobar, M., Donovan, S. S., Makarevitch, I., Morgan, B., Robertson, S. (2017). RNAseq data analysis using Galaxy. NIBLSE Incubator: RNAseq data analysis using Galaxy, (Version 3.0). QUBES Educational Resources. doi:10.25334/Q42H38