RNA-seq/proteomics workshop, 1 hp


National workshop hosted by the Bioinformatics Long-term Support. The workshop is open for PhD students, postdocs, researchers and other employees in need of bioinformatic skills within all Swedish universities.

Application form

 

Important dates

Application open: April 24

Application deadline: May 8

Confirmation to accepted students: May 13

Responsible teachers: Johan Reimegård, Björn Nystedt

If you don’t receive information according to the dates above, contact eva.molin@scilifelab.uu.se

Workshop fee:

A workshop fee of 1000 SEK will be invoiced to accepted participants (includes the study material, coffee, lunches and course dinner).

Workshop content

In this workshop, you will get both theoretical and hands-on exposure to current topics in RNA-seq analysis, with an introduction also to proteomics analyses. Lectures from experts in RNA-seq, proteomics and biostatistics will cover a range of cutting-edge issues in different RNA-seq applications, including updates on long reads sequencing, single-cell sequencing and proteogenomics. An extensive case study in the computer lab will familiarize you with concepts of mapping, de novo assembly, isoform quantification, genome annotation and comparisons between RNA and protein data.

To the right, under Related items you find a preliminary schedule.

Entry requirements

  • Basic knowledge in linux is a requirement! We will not teach Linux at the workshops and you will have considerable trouble to follow the practical sessions if you are not reasonably used to work in a linux environment.
  • Be able to bring your own laptop for the practical computational exercises. If you don’t have a laptop to bring please contact Eva Molin, eva.molin@scilifelab.uu.se before you register.
  • Some programming/scripting experience is desirable, but not required.
  • Experience working on the SNIC center Uppmax is desirable, but not required.
  • A background in genetics, cell biology, biomedicine, biochemistry, bioinformatics or comparable is desirable.
  • Participants of the SciLifeLab Course “Introduction to Bioinformatics using NGS data” (or alike) are most welcome to apply, but this course is not required. Some overlap with this course is expected, but the workshops will be considerably more detailed on the covered topics.

To get the maximum benefit from the course we would like you to have

  • Relevant previous experience in sequencing or analysis
  • A current research project where you are currently using next generation sequencing or are planning to use next generation sequencing.
  • It is beneficial if you are directly performing analyses or if you have a support role and will be able to participate in a wide range of projects and transfer your knowledge to others.

 

Due to space constraints for the computer exercises, there are a maximum number of allowed participants. If we receive more applications, participants will be selected based on several criteria. Selection criteria include correct entry requirements, motivation to attend the course as well as gender and geographical balance.