Date(s) - 18/08/2022
1:00 am - 3:30 am
This course is currently FULL. If you want to be placed on the reserve list, please contact Timo
Day: Thursday, August 18th 2022
Venue: University of Oslo, DM4 Domus Medica, L-257
Registration deadline: August 4th 2022
Please register at the following link: https://nettskjema.no/a/271699
N.B. due to the short length, IBA does not cover travel/accommodation costs for this course.
13:00 – 13:30 Part I: Introduction to Whole Genome Sequencing
Theoretical introduction and applications in microbial whole genome sequence analysis:
- Basic whole genome sequence assembly and bioinformatics
- NGS read-to-reference alignment (contig assembly)
Analysis techniques covered will employ raw data from Illumina platforms (HiSeq/MiSeq).
After giving a short overview of Next Generation Sequencing, paired-end reads and the difficulties of whole genome assembly, we will address quality control of the raw data (FastQC), common file types and adapter/quality trimming. Differences between De novo assembly and mapping to an annotated reference genome will be explained, and we will present different software solutions and tools.
13:30 – 13:45 Coffee break
13:45 – 15:30 Part II: Hands-on exercises
- Quick explanation of associated file types
- Performing quality checks with FastQC (before and after trimming)
- Adapter and quality trimming
- Contig assembly and mapping to reference genome