Type:	Lecture (4 SWS) + Exercise (2 SWS)
Ects:	8.0
Lecturer	Burkhard Rost  (lecture) Tobias Hamp, Esmeralda Vicedo (exercise)
Rotation:	Wednesday 12:00 (st) - 13:30 (lecture) Friday, 10:30 (st) - 12:00 (lecture) Friday, 12:00 (ct) - 13:30 (exercise)
Place:	Lecture: Wednesday: MI 01.09.034 , Friday: MI 01.09.034 Exercise: MI 01.09.034
Language:	English
Announcements:	No lecture on October 28 and November 2. Next Exercise on November 4 in room MI 01.09.034 (also see the news update). The videos can be downloaded on this page Examen: Makeup:

This lecture continues the 'Protein Prediction' lecture. Topics will include (but not be limited to):

• 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.

 

Lecture:

Lecture 1 - 20111021 - PP2 - Burkhard Rost - "Individualized Medicine - Our Work"

• Slides Video

Lecture 2 - 20111026 - PP2 - Burkhard Rost - "Introduction to Protein Function"

• Slides Video

Lecture 3 - 20111109 - PP2 - Burkhard Rost - "Protein Function"

• Slides Video

Lecture 4 - 20111111 - PP2 - Burkhard Rost - "Motifs & Function By Association"

• Slides Video

Lecture 5 - 20111116 - PP2 - Andrea Schafferhans - "Protein Ligand Interactions Docking" 

• Slides Video

Lecture 6 - 20111118 - PP2 - Andrea Schafferhans - "Enzymes - Predicting Function Using Structures"

• Slides Video

Lecture 7 - 20111123 - PP2 -  Burkhard Rost  - "Predict Localization 1"

• Video

Lecture 8 - 20111125 - PP2 - Burkhard Rost  - "Predict Localization 2"

• Slides Video

Lecture 9 - 20111130 - PP2 - Marc Offman - "Protein Engineering 1" 

• Slides Video

Lecture 10 - 20111202 - PP2 - Marc Offman - "Protein Engineering 2" 

• Slides Video

Lecture 11 - 20111207 - PP2 - Andrea Schafferhans and Guy Yachdav - "Bioinformatics in Industry"

• Slides Video

Lecture 12 - 20111209 - PP2 - Burkhard Rost - "Predict Localization 3"

• Slides Video

Lecture 13 - 20111216 - PP2 - Tatyana Goldberg - "Predict Localization 4"

• Slides Video

Lecture 14 - 20120111 - PP2 -  Burkhard Rost - "SNP Effect 1"

• Video

Lecture 15 - 20120113 - PP2 - Burkhard Rost -  "SNP Effect 2"

• Slides Video

Lecture 16 - 20120118 - PP2 - Burkhard Rost - "Predict effect of mutation on function/ Predict protein-protein interactions 1"

• Video

Lecture 17 - 20120120 - PP2 - Burkhard Rost - "Predict protein-protein interactions 2"

• Slides Video

Lecture 18 - 20120125 - PP2 - Marco de Vivo - "Paths to drug discovery and the role of computational chemistry"

• Slides Video

Lecture 19 - 20120127 - PP2 - Marco Punta - "Pfam: what's in a protein database"

• Slides Video

Lecture 20 - 20120201 - PP2 - Burkhard Rost - "Protein-protein interactions 3  / Protein-DNA / G0"

• Slides Video

 

Videos are also available on SciVee: www.scivee.tv/user/rostlab

 

Exercise:

• Sheet 1

• Sheet 2