MG4U Bioinformatics Training: Agenda

Time

27.05.2013

28.05.2013

29.05.2013

30.05.2013

31.05.2013

8.30-10.00

 

Introduction to biological data and databases

Sequence comparison - similarity, identity substitution matrices

 

Multiple alignments - patterns, profiles databases

 

Introduction to (meta)genome annotation

Day 1: Software, methods, concepts

Annotation 1

 

Day  2: Practical work on exemplary data

Annotation 4

10.00 – 10.30

Break

Break

Break

Break

Break

10.30-12.00

 

Linux for beginners I

 

Linux for beginners II

 

Linux for beginners III

 

Annotation 2

Annotation 5

12.00 – 13.00

Lunch break

Lunch break

Lunch break

Lunch break

Lunch break

13.00 – 15.00

 

Contextual data aquisition, storage

MIxS, Ontologies

 

Dynamic Programming

 

Multiple alignment tools, MAFFT, Muscle

 

Annotation 3

Annotation 6

15.00 – 15.30

Break

Break

Break

Break

End of course

15.30 - 17.00

 

Important databases Navigation, retrieval

 

BLAST [n,p,x] Command line BLAST output parsing

 

Pfam, Prosite, InterPro

Command line HMMer

 

Free time,

Start of social event at about 18:00

(joined dinner and guided city night tour)