Micro B3 Bioinformatics I Training: Agenda

Time

08.10.12

09.10.12

10.10.12

11.10.12

12.10.12

8.30-10.00

Introduction biological data databases

FOG

Sequence comparison similarity, identity substitution matrices

FOG

Multiple alignments patterns, profiles databases

Motif representation and search algorithms

FOG

Introduction to the e-learning portal for marine DNA sequence annotation

Annotathon 1: ORFs

PH

Annotathon 4: phylogenetic tree inference

10.00 – 10.30

Break

Break

Break

Break

Break

10.30-12.00

Linux for beginners I

CQ, JG

Linux for beginners II

CQ, JG

Linux for beginners III

CQ, JG

Annotathon 2: functional hypotheses

Annotathon 5: of trees & taxonomy

12.00 – 13.00

Lunch break

Lunch break

Lunch break

Lunch break

Lunch break

13.00 – 15.00

Contextual data aquisition, storage

MIxS, Ontologies

RK, PY

Dynamic Programming

AFG, JS

Multiple alignment tools, MAFFT, Muscle

RK, AFG

Annotathon 3: multiple alignments

Annotathon 6: team MicroB3 is primed to annotate!

15.00 – 15.30

Break

Break

Break

Break

END

15.30 - 17.00

Important databases Navigation, retrieval

AFG, JS

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

AFG, JS

Pfam, Prosite, InterPro

Command line HMMer

RK, AFG

Relax - free time

Special guest lecture by Jack Gilbert from Argonne National Lab