Introduction to genome annotation

Teachers:
Jacques Dainat, Ph.D.
Lucile Soler, Ph. D.
NBIS (National Bioinformatics Infrastructure Sweden)
Genome Annotation Service
http://nbis.se/about/staff/jacques-dainat/
http://nbis.se/about/staff/lucile-soler/
http://nbis.se

Schedule

Click the heading of a topic to see the lecture slides or lab instructions.

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This course is given at Navet (E10) at BMC. Click the heading of a topic to see the lecture slides or lab instructions.

Tuesday 15th

Room: E10:1309
09.00-9.15 Introduction (Elina Staaf, Henrik Lantz)
09.15-10.00 Lecture: Understanding Annotation (Henrik Lantz)
10.00-10.15 Coffee break
10.15-12.00 Practical 2: Gathering and preparation of data (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)
12.00-13.00 Lunch
13.00-14.30 Lecture : Structural annotation part 1 (Jacques Dainat)
14.30-17.00 Practical 2: Gathering and preparation of data (incl. coffee break) (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)

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Wednesday 16th

Room: E10:1309
09.00-9.15 Summary of yesterday’s exercise (Lucile Soler, Jacques Dainat)
09.15-10.00 Lecture: Structural annotation part 2 Maker (Jacques Dainat)
10.00-10.15 Coffee break
10.15-12.00 Practical 3: Structural annotation of eukaryote genomes (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)
12.00-13.00 Lunch
13.00-15.00 Practical 3: Structural annotation of eukaryote genomes (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)
15.00-15.15 Lecture: Introduction to manual curation (Jacques Dainat)
15.15-17.00 Practical 4: Manual curation (incl. coffee break) (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)

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Thursday 17th

Room: E10:1309
09.00-9.15 Summary of yesterday’s exercise (Lucile Soler, Jacques Dainat)
09.15-10.00 Lecture: Functional annotation (Lucile Soler)
10.00-10.15 Coffee break
10.15-12.00 Practical 5: Functional annotation and annotation analysis contd. (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)
12.00-13.00 Lunch
13.00-13.30 Submission DB
13.30-14.00 Lecture: Prokaryote annotation (Lucile Soler)
14.00-15.45 Practical 1: Prokaryote annotation and visualization (incl. coffee break) (Lucile Soler, Jacques Dainat, Mahesh Binzer-Panchal)
15.45-16.00 Summary of prokaryote annotation exercise (Lucile Soler)
16.00-17.00 Wrap-up

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Note: The practical exercise sessions will be made on the UPPMAX cluster. »UPPMAX login instructions«