RNA-Seq for the Next Generation

Materials are under development

Experimental Design

Design Experiment

RNA Purification, Library Prep & Sequencing

Purify RNA
- Protocols
- Questions
Quantitate & QC RNA
- Nanodrop
- Bioanalyzer
- Questions
Prepare RNA-Seq Library
- Illumina Library Construction
- Lecture
- Questions
Sequence

Illumina Sequencing Technology
Lecture
Questions

Manage and Process Data

Manage Data
- Copy Data from SRA
- Copy Data from DE
Quality Control Raw Sequence Data
- FastQC (Green Line)
- FastQC (DE)
- Questions
Filter & Trim Reads
- FastX Toolkit
- FastX Toolkit (Green Line)
- FastX Toolkit (DE)
- Questions
Map & Count Reads
- TopHat
- TopHat (Green Line)
- TopHat (DE)
- Questions
Determine Differential Gene Expression
- CuffDiff
- CuffDiff (Green Line)
- CuffDiff (DE)
- Questions

Analyze Results

Visualize Reads
- IGV
Validate Results
- Design Primers
- qRT-PCR
- Questions
Downstream Analyses
- Build Graphs in R
- Biological Pathways
- Questions