Special-topic Lecture Bioinformatics: Processing of Biological Data

Tutors:

Daria Gaidar, Nicolas Künzel, Maryam Nazarieh, Duy Nguyen, Thorsten Will

Lecture:

Monday, 2:15 pm - 4:00 pm, building E2 1, room 007

First lecture: Monday, October 22nd, 2:15 pm

Tutorial:

Monday, 12:15 pm - 1:45 pm, building E2 1, room 007, every second week

Exam:

Date: Monday, February 25th, 2019, 10:00 am - 12:00 am, building E1 3, HS 001

Results of the re-exam of Friday, April 5th, 2019.

Exam review: Monday - Thursday, 9:00 am - 2:00 pm, E2 1, room 314

Information:

This course can be used as a "Spezialvorlesung der Bioinformatik/Special-topic Lecture Bioinformatics"

Requirements:

Intermediate programming skills in Python

Content:

    • clustering of data
    • principal component analysis
    • differential expression analysis
    • removal and correction of data outliers; prediction of missing values
    • processing of proteomics data; imputation of missing values
    • peak assignment
    • shape detection
    • functional annotation
    • protein structure data (Protein DataBank); thermal mobility; titration states; hydration sites; PDBcheck
    • molecular dynamics simulations; time correlation of snapshots
    • multi-variate analysis
    • analysis of multi-dimensional data; data integration

Conditions for certification:

Students need to pass the final exam.

There will be about six bi-weekly graded assignments and tutorial sessions. Students need to get at least 50% of the points from the assignments to be admitted to the final exam. 

Schein/Certification:

Students need to pass the written final exam that will be scheduled near the end of the summer semester or the re-exam that will be scheduled at the beginning of the following winter semester.

Leistungspunkte/Credits:

5 (2 V + 1 Ü)

Language

This course is taught in English language.

Lectures:

 

Lecture 1, Oct. 22 pdf ppt    
Lecture 2, Oct. 29 pdf  ppt    
Lecture 3, Nov. 5 pdf ppt Assignment 1 Supplement 1
Lecture 4, Nov. 12 pdf ppt    
Lecture 5, Nov. 19 pdf ppt

Tutorial on Nov. 19th

Assignment 2

 Supplement 2
Lecture 6, Nov. 26 pdf ppt    
Lecture 7, Dec. 3 pdf ppt Assignment 3

Suppl. 3/1

Suppl. 3/2

Suppl. 3/3

Lecture 8, Dec. 10 pdf ppt    
Lecture 9, Dec. 17 pdf ppt  Assignment 4 Supplement 4 
Lecture 10, Jan. 7 pdf ppt    
Lecture 11, Jan. 14 pdf ppt Assignment 5 Supplement 5
Lecture 12, Jan. 21 pdf ppt    
Lecture 13, Jan. 28 pdf ppt    
Feb. 4: no lecture        

 

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