OUS/IBA Bioinformatics course – Level 1

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Date/Time
Date(s) - 18/08/2022
1:00 am - 3:30 am

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Day: Thursday, August 18th 2022 

Time: 13.00-15.30

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 
Participants must bring their own laptops (limited to 8 persons, on a first-come first-serve basis).  A list of required programs including instructions on how to install them will be provided before the course. You do not need any previous knowledge to attend this beginner’s course.