In collaboration with Turning the Tide of Antimicrobial Resistance (TTA), IBA invites IBA PhD student members to the TTA Bioinformatics course Level 1.
Wednesday, January 20th 2021 – Oslo, UiO, Domus Medica, L-257
This course will give you basic knowledge on whole genome assembly, including quality assessment of raw data (FastQC), adapter / quality trimming and contig assembly. You will also learn about the differences between De novo assembly and mapping to an annotated reference genome.
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).
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
Course facilitator: Timo Lutter