Bioinformatic Analysis of ChIP-seq Data

Genomic approaches are widely used in all fields of biology. Among these approaches, the ChIP-seq technique allows to identify all genes regulated directly by a regulator protein. The Cursus Plinius proposes the workshop “Bioinformatics analysis of Chip-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 Chip-seq data analysis.

At the end of the workshop, the PhD student will be able to process any type of Chip-seq data.

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 Chip-seq and sequencing technologies, we will present the organization of the Chip-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 directly controlled by a regulator protein.

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

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

Students prerequisites

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