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
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.
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.
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.
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.
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.
The timetable for Friday students' presentations can be found here
GA Giovanna Ambrosini (EPD/EPFL/SIB)
PB Philipp Bucher (EPD/EPFL/SIB)
RD René Dreos (EPD/EPFL/SIB)
SK Sunil Kumar (EPD/EPFL/SIB)