Objectives
- Understand the key steps in RNASeq data analysis for a differential expression study
- Know how to perform command-line analysis using Snakemake.
Course Content
Day 1
- Principle of RNASeq technology: objectives and experimental design.
- Data quality assessment (FastQC, MultiQC).
- Sequence alignment to a reference genome (STAR).
Day 2
- Differential gene expression analysis (HTSeqCount, DESeq2).
- Introduction to functional annotation (GO, Kegg).
- Using the Snakemake workflow system on GLiCID cluster.
- Comparison between RNASeq and 3’SRP methods.
Prerequisites
- Be comfortable with basic Linux commands or have completed the training course “Introduction to the command-line interface.”
- Be familiar with the use of a computing cluster, conda/mamba et snakemake or have completed the training course “Best practices in bioinformatics.”
Duration
- 2 days / 14 hours
Fees
- Academics Nantes Université: 472 euros
- Others academics: 544 euros
- Private sector: 1304 euros
Teaching Methods
- The theoretical part is followed by a pipeline run step-by-step on a test dataset. It will be possible to start an analysis on your own data if you have some.
Instructors
- Bioinformatics engineers from BiRD
Validation
Certificate of attendance provided to each participant on request
Registration
Register Here (except for PhD students - via Amethis)
