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)