Date(s) - 03/11/2021
12:30 am - 3:30 pm
Categories No Categories
IBA/TTA Bioinformatics course – Level 2
Wednesday, November 3rd 2021
Venue: University of Oslo, DM4 Domus Medica, L-257
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.
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.