Chip-seq data analysis: from quality check to motif discovery and more - An introduction to the tools and databases of the EPD team

Event Start Date 27 Mar 2017
Event End Date 31 Mar 2017
Speaker Philipp Bucher and the Computational Cancer Genomics group
ECTS 2 (given a paper presentation)
Fee 200 CHF for academics. Others, please contact us
Cancellation deadline 15 March 2017
Application status Open
Location University of Lausanne - Génopode

Overview

This is a course on bioinformatics resources taught by the developers of the resources. Participants will learn how to analyze their own or public ChIP-seq data using tools from the ChIP-seq, Signal Search Analysis (SSA) and PWMtools servers in conjunction with the Eukaryotic Promoter Database (EPD) and external regulatory bioinformatics tools.

Learning objectives

After the course, participants should:

  • have a thorough understanding of the methods of ChIP-seq data analysis and DNA motif-based gene regulatory region analysis
  • be proficient in the usage of our bioinformatics tools
  • be able to interpret results obtained with our tool
  • have gained ample practical experience in working with public NGS-based functional genomics data.

Prerequisites

Knowledge / competencies:

Participants should have a good understanding of molecular biology and functional genomics. Most of the exercises are web-based. Basic knowledge of R is required for some exercises, please visit our tutorial here.

Technical:

A WiFi-equipped laptop with at least 30 GB free hard-disk space.

Application

The registration fees for academics are 200 CHF. This includes course content material and coffee breaks. Participants from non-academic institutions should contact us before application.

Deadline for application and free-of-charge cancellation is set to 15 March. Cancellation after this date will not be reimbursed.

Please note that participation to SIB courses is subject to our general conditions, available here.

You will be informed by email of your registration confirmation.

Location

University of Lausanne, Génopode building, classroom 2020 (Metro M1 line, Sorge station).

Additional information

We will recommend 2 ECTS credits (40 hours lessons/practical + 20 hours paper preparation / presentation).

Coordination: Grégoire Rossier

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