Next Generation Genomics 2012

  • Organized by GPBM, VGSB, Institute of Biotechnology and EBI
  • The course comprises two distinct practical parts and a symposium. Preliminary information updating here.
  • REGISTERING to the symposium and practicals separately. Follow the pages for updating information.

Sept 10-12: Practical course on 'RNA/Chip-Seq data analysis'EBI


COURSE BLOG contains updating information to participants and everyone interested

Target audience

This course is aimed at advanced PhD students and post-doctoral researchers who are applying or planning to apply high throughput sequencing technologies and bioinformatics methods in their research.
The aim of this course is to familiarize the participants with advanced data analysis methodologies and provide hands-on training on the latest analytical approaches.

Course content

Lectures will give insight into how biological knowledge can be generated from RNA-seq and ChIP-seq experiments and illustrate different ways of analyzing such data. Practicals will consist of computer exercises that will enable the participants to apply statistical methods to the analysis of RNA-seq and ChIP-seq data under the guidance of the lecturers and teaching assistants. Familiarity with the technology and biological use cases of high throughput sequencing is required, as is some experience with R/Bioconductor.

The practical work will be performed on personal laptop computers that participants are expected to arrange and bring along to the course. Laptops with all major operating systems (Linux, MacOSX, Windows XP or later) are supported. A list of required software and R packages is provided before the start of the course. Local organisers are prepared to help with the software installation if necessary.

Teachers by topic

  • Nicolas Delhomme, EMBL, Heidelberg: Short read analysis with R & Bioconductor
  • Kathi Zarnack and Borbala Gerle, EMBL-EBI, Hinxton: ChIP-seq data analysis
  • Angela Goncalves, EMBL-EBI, Hinxton: RNA-seq data analysis
  • Gabriella Rustici, EMBL-EBI, Hinxton: Data archiving

Why to learn and use R?

The practical course on RNA/Chip-Seq analysis uses extensively the R software and familiarity with that is required from all the participants. The most efficient way to learn R is to follow one of the many tutorials available and do the practical examples on one's own computer. If you want to know more about the advantages of using R in biological data analysis and start learning the basics of R before the practical course, please look at this document

We are prepared to arrange a few R support sessions during the summer months at the Viikki campus with an R expert helping with the program installation and answering your questions. If you are interested in such a session, please indicate that in the registration form. Participants are expected to bring personal laptops with them.