TTA – Bioinformatics Level 1 (full)

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Date(s) - 20/01/2021
1:00 pm - 3:30 pm

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In collaboration with Turning the Tide of Antimicrobial Resistance  (TTA), IBA ​invites you to the TTA Bioinformatics course Level 1.

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.

Participants must bring their own laptops (limited to max 6 persons, on a first-come first-serve basis).

We will provide Geneious educational licenses and a list of required preparations for the hands-on part one week before the course. You do not need any previous knowledge to attend this beginner’s course.

Due to Corona virus restrictions, the course will be limited to 6 participants. If there are more applicants, we will organize a repetition of the course. In the event of cancellation due to updated infection control measures by the University of Oslo, we will postpone the course , and all accepted course participants will be given the chance to join.

Date: January 20th – 13:00-15:30

Registration:  (deadline: January 15th)

Course facilitator: Timo Lutter

Location: Oslo, UiO, Domus medica tilbygg, L-257

Course schedule

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