Archana Bhardwaj

Dates

Themes

GoToMeeting ID

Course materials

 March 10 (2-6pm)

 I: GWAS

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• Course adminstration
• updated: Bioinf applications_2021_course notes_CLASS Theme I

March 24 (2-6pm)

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March 31 (5-6pm with discussion) and April 21 (5-6pm with discussion)

 II: Systems Medicine

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• Bioinf applications_2021_course notes_CLASS Theme II
• Bioinf applications_2021_course notes_CLASS Theme I_II

 Assignment:

• Go to https://www.disgenet.org/ and the SEARCH button
• Go to “General links” and “Summary of All Variant-Disease Associations”
• Click on ADD/REMOVE FILTER
• Type in the DISEASE of your choice (make sure you use the convention suggested by the data bases)
• Select in addition SOURCE GWASCAT if you wish to have GWAS studies from the GWAS catalogue; alternatively select SOURCE GWASDB
• Take most recent studies “Last Ref” and/or those with a good number of evidences via “N PMIDs”
• GO!

• Bioinformatics Applications _Assignments and Organization 2020-2021_I
• Bioinformatics Applications _Assignments and Organization 2020-20201_II
• Critical reading

Examples:

• Literature on GWAS (examples):
• Literature style papers _ gwas
• Literature style papers_GWAS_ practical examples
• Literature on Systems approaches (examples):
• Literature style papers _systems
• Literature style papers_systems_6 practical examples

To prepare (in English)

Evaluated*

March 31  (2-6pm)

I: presentations with  discussions

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 1. A slides deck addressing all Q: get to the point, using materials from selected paper + new materials

 2. Select 3 Q to work out in depth on slides. There is no limit on the number of slides but the presentation should be ~15min

Oral slides presentation with  Q&A

 April 21  (2-6pm)

II: presentations with discussions

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 2. Select 3 Q to work out in depth on slides. There is no limit on the number of slides but the presentation should be 15-20min

Oral slides presentation with  Q&A

Compilation of 1. as starting point

Written exam: Select from the compilation  of (max 50) slides to build a  comprehensible “story” (details to be discussed: slides or doc)

Dates

Themes

To prepare

Evaluated

Scoring

Extra information

 March 31

  (2-6pm)                

I: presentations with educative discussions

1. Slides addressing the Qs

2. Selection of slides addressing 3 Q in depth to present in ~15min

Oral slides presentation

with Q&A:

• clarity of slides
• accuracy
• relevant illustrations (be creative)
  
• links to other resources (incl class refs)
• efforts made to understand concepts/analysis flow

30

  April 21

  (2-6pm)

II: presentations with educative discussions

 1. Slides addressing the Qs

 2. Selection of slides addressing 3 Q in depth to present in 15-20 min +

3. Team up with a fellow student: link paper 1 and paper 2 (see assignment II details)

Oral slides presentation with Q&A:

• 5 items as before

20

10

Example: student 1 chose asthma GWAS as theme I topic on March 31; student 2 chose interpretation of molecular networks as theme II topic on April 21. Linking both could be to check which molecular networks are relevant for asthma.

Compilation of 1. before

Written exam: Compilation of slides into a comprehensible “story” (max 50 slides); Do not simply paste the already presented slides that only covered a few questions. Presenting the "big picture" is important.

40 (based on accurateness and critical evaluation with links to literature and classes)

Details about the exam assignment