Home Page
Schedule
Assignments
Project
Home Page
Schedule
Assignments
Project
The links to each lecture contains extra material that can be useful in addition to the material in the book. Some of it might be beyond the scope of the course.
* = lectures notes/articles in course compendium
| Date | Room | Morning (10-12) | Afternoon (13-16) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 28/11 Mon | Röda Sem | Genomes and genes* slides(AE) [OJT:18-28] | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 29/11 Tue | Röda Sem | Sequence comparison methods [OJT:29-38] (EL) | Search with Entrez and Gene Finding (BW/EG) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 30/11 Wed | Röda Sem | Amino acid comparison [OJT:39-57] (EL) | Alignments,databases (BW/EG) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 1/12 Thu | Röda Sem | Multiple seqence alignments, HMMs PSI-BLAST (EL) [OJT:45-48,65-77] | Project info, PSI-BLAST, Multiple sequence alignments (BW/EG) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 2/12 Fri | Röda Sem | Molecular evolution and Phylogeny (BS) [OJT:1-17] | Phylogenetic trees (BW/EG) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 5/12 Mon | Röda Sem | Neural Networks and other machine learning methods* (OE) [OJT:58-64,241-244] | Neural networks LOGOs, SignalP (BW/EG) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 6/12 Tue | Röda Sem | Membrane proteins: structure, prediction* (GvH) | Discussion I (AE/EL) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 7/12 Wed | Röda Sem | Protein Secondary Structure predictions etc* (AE) [OJT:135-144] suppl. infoslides | - | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| 8/12 Thu | Röda Sem | Fold Recognition* (AE) [OJT:145-151] suppl. infoslides | 2D-str. predictions and membrane predictions (BW/EG)
| 9/12 Fri | Röda Sem | Comparative Modeling* (EL) [OJT: 121-134] Extra Material* | 3D-databases, Fold Recognition, Homology Modeling (BW/EG)
| 12/12 Mon | Röda Sem | Protein structure classification and comparison (ES) [OJT: 81-120] | -
| 13/12 Tue | Röda Sem | Project (BW/EG) | -
| 14/12 Wed | Röda Sem | Databases in bioinformatics (AE) slides [OJT:259-282] | -
| 15/12 Thu | Röda Sem | From Protein structure to protein function [OJT:151-174] and Structured based genome annotations* [OJT:175-192] slides(AE) | Databases (BW/EG)
| 16/12 Fri | Röda Sem | Microarrays and Proteomics slides(AE) [OJT:217-257} | -
| 19/12 Mon | Röda Sem | Protein-protein interactions (AE) slides[OJT:193-200] | Discussion II (AE/EL) and Short presentation of project status (BW/EG)
| 20/12 Tue | Röda Sem | - | -
| 21/12 Wed | Röda Sem | - | -
| 22/12 Thu | Röda Sem | Exam in bioinformatics (10-14) | -
| 12/1 Thu | Röda Sem | Project BW/EG |
| 13/1 Fri | Röda Sem | Draft version of Project paper should be delivered.
| 16/1 Mon | Röda Sem | Techniques for oral and written presentations (AE) | -
| 17/1 Tue | Röda Sem | Feedback of Project Draft (individual)(BW/EG) | -
| 18/1 Wed | Röda Sem | Final version of Project paper should be delivered.
| 19/1 Thu | Röda Sem | Presentation preparation | -
| 20/1 Fri | Röda Sem | Project presentation | Project presentation
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* = lectures notes/articles in course compendium
This course uses the following book: Bioinformatics (Advanced Texts) C.A. Orengo, J.M. Thornton, D.T. Jones Publisher: BIOS Scientific Publishers; ISBN: 1859960545
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Arne Elofsson Stockholm Bioinformatics Center, Department of Biochemistry and Biophysics, SCFAB Stockholms Universitet 10691 Stockholm, Sweden |
Tel: +46-(0)8/5537 8568 Fax: +46-(0)8/5537 8214 Mobile: +46-(0)70/6951045 Email: arne@sbc.su.se WWW: http://www.sbc.su.se/~arne/ |
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