Protein Prediction I Advanced (for Bioinformaticians)

 

Type:

Lecture (4 SWS) + Exercise (2 SWS)

Ects:

8.0

Lecturer

Burkhard Rost  (lecture)
Tatyana Goldberg, Maximilian Hecht, Lothar Richter (exercise)

Lecture:

Tuesday, 12:30 - 14:00

  • Room: 01.09.034 (MI, Boltzmannstr. 3; 1.OG)

Thursday, 12:30 - 14:00

  • Room: 01.09.034 (MI, Boltzmannstr. 3; 1.OG)

Exercise:

Tuesday, 14:10 - 15:40

Exam:

Tuesday, July 8th 12:30 - 14:00

Room: 01.09.034 (MI, Boltzmannstr. 3; 1.OG)

Language:

English

Announcements:
  • Lecture on June 12th CANCELLED due to illness
  • No lecture on June 3rd
  • NO LECTURE on Apr. 8th, lecture starts at Apr. 10th

Content

Topics will include (but not be limited to):

  • Intro: what is protein function?
  • Predicting protein function using sequence: sequence alignments, multiple sequence alignments, motifs, domain assignment, annotation transfer by homology, ab initio predictions.
  • Predicting protein function using structure: structural alignments, structural motifs, annotation transfer via structure similarity.
  • From structure prediction to function prediction: comparative modeling; prediction of: secondary structure, hydrophilicity profiles, solvent accessibility, transmembrane segments, disordered regions, contact maps, functional residues; template free modeling.
  • Machine learning.

Materials

Lecture:

No Lecture on June 26th, attend Nobel Laureate Talk

Slides 1 Slides 2 June 24th (Video)

Slides June 17th (Video)

No lecture on June 12th

Slides June 5th

No lecture on June 3rd

Slides May 27th (Video)

No lecture on May 22nd

Slides May 20th (Video)

Slides May 15th (Video)

Slides May 13th (Video)

Slides May 8th (Video)

Slides April 24th (Video)

Slides April 15th (Video)

Slides April 10th, Introduction

Exercise:

The main information exchange for the exercise is this wiki. Every week mentors add assignments as wiki entries and students append their comments and results. - You can log in to edit with the credentials for the Rostlab student computer cluster.