Bioinformatic Analysis of RNA-seq Data

Genomic approaches are widely used in all fields of biology. Among these approaches, the RNA-seq technique allows to follow the expression of all the genes of an organism in response to an environmental change. The Cursus Plinius proposes the workshop “Bioinformatics analysis of RNA-seq data” to give to the PhD student the opportunity to learn how to process and analyze these data using a galaxy server that allows from a graphical interface to perform any kind of RNA-seq data analysis.

At the end of the workshop, the PhD student will be able to process any type of RNA-seq data whether it is of eukaryotic or prokaryotic origin.

Data sets will be provided by the trainer. However, it is entirely possible for the student to process his or her own data sets if he or she or his or her team has or plans to acquire them. For this purpose, it is necessary to contact Christophe Bordi to determine the types of data and the format required.

Timeline

The workshop will take place during 2 days.

During this course, we will introduce the RNA-seq and sequencing technologies, we will present the organization of the RNA-seq dataset. Then we will see how to visualize the data, clean them, and align them to a reference genome as well as perform static analysis to identify genes whose expression has varied between the two experimental conditions. At the end we will make a graphic representation of the results for publication or communication.

1. Half-days 1 : Introduction to NGS, RNA-seq and description of the Dataset.

2. Half-days 2 to 4 : Analysis of RNA-seq data set and graphic representation of the results.

Students prerequisites

• Knowledge of genomics, NGS and RNA-seq is a plus.
• Agreement of the thesis director