Section outline

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

    Lausanne, 27 April - 1 May 2015

    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. 

    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. They should be proficient in the usage of our bioinformatics tools and be able to interpret results obtained with our tools. Moreover, they should have gained ample practical experience in working with public NGS-based functional genomics data.       

    Requirements

    Skills: 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.

    Material requirements: A WiFi-equipped laptop with 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.

    Application is now closed.

    Deadline for registration and free-of-charge cancellation is set to April 22. Cancellation after this date will not be reimbursed.

    Location

    The course will take place at EPFL in room AAC006 from 9:00 to 17:30 during the period April 27 - May 1, 2015, except April 30 when the course will be held in room AAC008.

    Additional information

    The course is worth 2 ECTS credits (40 hours lessons/practical + 20 hours paper preparation / presentation).

    The list of papers for the Friday sessions is posted here. Please select your paper via the doodle poll. Presenting a paper is mandatory for students who take the course for credits and highly encouraged for all other participants.

    You are welcome to register to the SIB courses mailing-list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

    Students presentations

    The timetable for Friday students' presentations can be found here