Special-topic Lecture Bioinformatics: Processing of Biological Data WS 21/22

Tutors:

Andreas Denger, Markus Hollander, Trang Do Hoang Thu; Sudarshini Thangamurugan

Lecture:

Tuesday, 10:15 am - 11:45 am, planned to take place in presence, building E2 1, room 001

First lecture: October 19th, 2021;

Students intending to take this course should send an e-mail to kerstin.gronow-p@bioinformatik.uni-saarland.de
so that they can be registered as participants. This is NO exam registration.

Tutorial:

Thursday, 4:15 pm - 5:45 pm, E2 1, room 007, biweekly, starting on November 18th, 2021

 

Re-Exam

Wednesday, April 20th, 2022, 2:00 pm - 4:00 pm, building E2 1, room 007

LSF exam registration is mandatory by April 13th, 2022.

Please find the results of the re-exam of April 20th, 2022, here.

Exam:

Monday, January 31st, 2022, 10:00 am - 12:00; building E1 3, HS 002

LSF exam registration is mandatory by January 24th, 2022.

International students not physically present in Saarland can take an online exam instead. In this case, please, send an email until Thursday, January 20th, 10:00 am, to Kerstin Gronow-Pudelek.

Please find the results of the exam of January 31st here.

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 final exam that will be scheduled near the end of the winter semester or the re-exam that will be scheduled at the beginning of the following summer semester; written final exam -> oral exam

Leistungspunkte/Credits:

5 (2 V + 1 Ü)

Language

This course is taught in English language.

Lectures:

 

Lecture 1, October 19 pdf ppt
Lecture 2, October 26 pdf ppt Assignment 1

Supplement

Lecture, November 2 cancelled
Lecture 3, November 9 pdf ppt Assignment 2
Supplement 2
Lecture 4, November 16 pdf ppt
Lecture 5, November 23 pdf ppt
Lecture 6, November 30 pdf ppt Assignment 3
Supplement 3
Tutorial 2, December 2nd online in MS Teams
Lecture 7, December 7 pdf ppt
Lecture 8, December 14 pdf ppt Assignment 4 

Supplement 4

Lecture 9, January 4 pdf ppt
Lecture 10, January 11 pdf ppt Assignment 5

Supplement 5

Lecture 11, January 18 pdf ppt
Lecture 12, January 25