Module 3.1 Blast, in silicone MLST and gene annotation (outline)

Blast, in silico MLST and gene annotation


Time 

 

Activity description 

 

ILOs 

13-15

 

Lecture/Practical: “Blast, in-silico MLST and gene annotation” 

  • Understand how a blast search works, including input/output
  • Use blast to identify genes in an assembly
  • Set up a blast database
  • Use MLST on assemblies and interpret the results
  • Annotate assemblies using Bakta

15-16.30

Coding session: Free!

  • To be decided individually by the trainees


Details

In this session, the trainees will get started on how to gain some functional insights from their data. Blast will be introduced as a central tool for collecting information about unknown sequences, as well as comparing sequences to each other. The trainees will also be introduced to the basics of genome annotation and start to explore the functional repertoire of the bacterial genomes they have assembled.

At the end of the day, the trainees will have the possibility to decide the activity based on their own learning needs. For example, the time-slot can be used to catch up on practicals, ask questions to the trainers, read-up on documentation, or practice coding. Coding tasks will be provided as inspiration if needed.

Last modified: Monday, 25 March 2024, 11:24 AM