IBA/TTA Bioinformatics course – Level 2

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Date/Time
Date(s) - 03/11/2021
12:30 am - 3:30 pm

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IBA/TTA Bioinformatics course – Level 2


Wednesday, November 3rd 2021

Time: 12.30-15.30

Venue: University of Oslo, DM4 Domus Medica, L-257

Registration: https://nettskjema.no/a/222982

Application deadline: October 18th 2021

Limited to max 8 persons, on a first-come first-serve basis.


This course is a continuation of IBA/TTA bioinformatics course level 1 and requires some basic knowledge of whole genome assembly, including quality assessment of raw data, trimming and contig assembly. Earlier participation in one of our level 1 courses is a requirement.


PROGRAM


12.30 – 13.00   Part I: Theoretical introduction and short summary of level 1

After a brief repetition of required level 1 knowledge, we will give an introduction to:

  • SNP calling and phylogenetic trees
  • RNAseq and differential gene expression

Analysis techniques covered will employ raw data from Illumina platforms (HiSeq/MiSeq).

13:00 – 13:15   Coffee break

13.15 – 15.30   Part II: Hands-on exercises

  • Map to reference assembly and building of SNP trees in Geneious with RAxML (using Ebola virus isolates as an example)
  • RNAseq and differential gene expression in Geneious

Participants must bring their own laptops.

A list of required preparations including instructions on how to install Geneious trial version will be provided a week before the course. If you have used a trial version of Geneious before, we will send you an educational license for the course.

We will also organize a course focusing on protein structures (PyMOL), as well as our bioinformatics level 3 course later this year, where we will give an introduction to command line tools, whole genome alignment and how to build a WGS pipeline in Geneious.

Timo Lutter & Mari Støen (TTA)

Tina Svingerud (IBA)


Please note: given the short length of the course, IBA can not support travel and accommodation for this course.

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