Difference between revisions of "UNIL BSc course: Bioinformatics for Genomics 2021"

 
 
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* Schedule
 
* Schedule
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** 29 March 2021, 08:00-12:00: Session 1: "RNA-seq & DE"
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** 29 March 2021, 08:00-9:15: Lecture 1: "RNA-seq & DE" (Sven)
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** 30 March 2021, 08:00-12:00: Session 2: "Clustering"
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** 29 March 2021, 09:30-10:30: Tutorial 1: "RNA-seq & DE" (Anneke)
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** 12 April 2021, 14:00-18:00: Session 3: "Biclustering"
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** 29 March 2021, 10:45-12:00: Lecture 2: "Clustering" (Sven)
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** 13 April 2021, 08:00-12:00: Session 4: "More data"
 
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** 14 April 2021, 08:00-12:00: Session 5: "Networks"
 
  
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Each slot of 4h will start with a lecture of ~2h, followed by an exercise session.  
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** 30 March 2021, 08:00-9:00: Tutorial 2: "Clustering" (Alex)
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This semester all lectures and exercises will be given online. Live sessions at the above times will be given via Zoom (a link will be sent by e-mail).
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** 30 March 2021, 09:15-10:45: Lecture 3: "More seq-data" (Sven)
 +
** 30 March 2021, 11:00-12:00: Tutorial 3: "More seq-data" (Daniel)
 +
 
 +
** 12 April 2021, 14:00-15:30: Lecture 4: "Biological Networks" (Sven)
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** 12 April 2021, 16:00-17:30: Tutorial 4: "Biological Networks" (Daniel)
 +
 
 +
** 13 April 2021, 8:00-12:00: "Individual 15' sessions with groups of 3 students"
 +
 
 +
** 14 April 2021, 09:00-10:30: Lecture 5: "Advanced clustering" (Sven)
 +
** 14 April 2021, 11:00-12:00: Final Session: "Wrap-up & feedback" (all)
 +
 
 +
On 29/30 March we present the core material of this module. We will distribute simple exercises based on the tutorials before the Easter break. Groups of 3 students have to send us their answers before noon on April 12, and discuss them with the tutors in 15' slots running from 14:00 to 18:00 on that day. Additional feedback on these exercises will be given in the Final Session on April 14 starting at 11:00.
 +
 
 +
This semester all lectures and tutorial will be given online. If the situation allows the individual sessions on April 12 may be on site.
  
 
* Lecture presentations
 
* Lecture presentations
 
** "RNA-seq & DE": [[Media:Lecture1.pptx  | slides]]
 
** "RNA-seq & DE": [[Media:Lecture1.pptx  | slides]]
 
** "Clustering": [[Media:Lecture2.pptx | slides]]
 
** "Clustering": [[Media:Lecture2.pptx | slides]]
−
** "Biclustering": [[Media:Lecture3.pptx| slides]]
+
** "More seq-data": [[Media:Lecture4.pptx| slides]]
−
** "More data": [[Media:Lecture4.pptx| slides]]
 
 
** "Networks": [[Media:Lecture5.pptx | slides]]
 
** "Networks": [[Media:Lecture5.pptx | slides]]
 +
** "Advanced clustering": [[Media:Lecture3.pptx| slides]]
  
 
* Exercise material
 
* Exercise material
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** "Clustering": [[File:Exercise2.zip]]
 
** "Clustering": [[File:Exercise2.zip]]
 
** "Biclustering": [[File:Exercise3.zip]]
 
** "Biclustering": [[File:Exercise3.zip]]
−
** "More data": [[File:Exercise4.zip]]
+
** "More seq-data": [[File:Exercise4.zip]]
 
** "Networks": [[File:Exercise5.zip]]
 
** "Networks": [[File:Exercise5.zip]]
  
 
* Recordings
 
* Recordings
−
** available on Moodle at: https://moodle.unil.ch/course/view.php?id=6216
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** available on Moodle at: https://moodle.unil.ch/course/view.php?id=19549

Latest revision as of 22:31, 25 March 2021

  • Course aims:
    • Get to know some of the the bioinformatics methods necessary for genomic analysis
    • Use these methods on simple real cases
    • Develop an understanding of potential pitfalls and the impact of bioinformatics choices in genomic results
  • Prerequisites:
    • Notions of genomics (gene, genome, transcriptome)
    • Basic statistics (what is a test, a p-value)
    • Basic literacy in R and/or Python.
  • Schedule
    • 29 March 2021, 08:00-9:15: Lecture 1: "RNA-seq & DE" (Sven)
    • 29 March 2021, 09:30-10:30: Tutorial 1: "RNA-seq & DE" (Anneke)
    • 29 March 2021, 10:45-12:00: Lecture 2: "Clustering" (Sven)
    • 30 March 2021, 08:00-9:00: Tutorial 2: "Clustering" (Alex)
    • 30 March 2021, 09:15-10:45: Lecture 3: "More seq-data" (Sven)
    • 30 March 2021, 11:00-12:00: Tutorial 3: "More seq-data" (Daniel)
    • 12 April 2021, 14:00-15:30: Lecture 4: "Biological Networks" (Sven)
    • 12 April 2021, 16:00-17:30: Tutorial 4: "Biological Networks" (Daniel)
    • 13 April 2021, 8:00-12:00: "Individual 15' sessions with groups of 3 students"
    • 14 April 2021, 09:00-10:30: Lecture 5: "Advanced clustering" (Sven)
    • 14 April 2021, 11:00-12:00: Final Session: "Wrap-up & feedback" (all)

On 29/30 March we present the core material of this module. We will distribute simple exercises based on the tutorials before the Easter break. Groups of 3 students have to send us their answers before noon on April 12, and discuss them with the tutors in 15' slots running from 14:00 to 18:00 on that day. Additional feedback on these exercises will be given in the Final Session on April 14 starting at 11:00.

This semester all lectures and tutorial will be given online. If the situation allows the individual sessions on April 12 may be on site.

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