Home Page Schedule Assignments

KTH Bioinformatics

The links to each lecture contains extra material that can be useful in addition to the material in the book. The material in the "extra" column might be beyond the scope of the course and is only provided for the interested student. The other links are additional material when the course .

Schedule

Date Time Room Lecture/Assignmentsextra materialPages in book
Tue 14/1 10-12 FD5 Alignments (AE) [AL:160-183]
Wed 15/1 10-12 K1 Prokaryotic Genomes (PK) Extra[AL:62-83]
Thu 16/1 10-12 FD5 BLAST/FASTA & E-values (AE) [AL:184-186]
Mon 20/1 13-15 FD5 Eukaryotic Genomes (PK) Extra[AL:83-99]
Tue 21/1 10-12 FD5 Databases in bioinformatics (PK) Extra [AL:115-138]
Wed 22/1 8-12 XK31-32 Searches, alignments and genomes (BW/KM/PU) (group 1)
Thu 23/1 10-12 FD5 Multiple seqence alignments (AE) and protein signals [AL:188-195]
Fri 24/1 8-12 XK31-32 Searches, alignments and genomes (JFS/EG/ML) (group 2)
Tue 28/1 10-12 FD5 Phylogeny (BS)Whelan et al. (2001), Trends in Genetics 17:262-272. Huelsenbeck et al. (2001), Science 294:2310-2314.* [AL:196-206]
Thu 30/1 10-12 FD5 Prot. str. comparison SCOP (AE) Overheads from Mark Gerstein [AL:230-236]
Fri 31/1 8-12 XK31-32 Searches, alignments and genomes (BW/KM/PU) (group 3)
Fri 31/1 13-17 XK31-32 Multiple sequence methods (JFS/EG/ML) (group 1)
Tue 4/2 10-12 FD5 Neural networks (OE) [AL:242]
Thu 6/2 10-12 FD5 Membrane proteins: structure, prediction (GvH) slides[AL:227]
Thu 6/2 13-15 FB55 Discussion I (PK/AE) (group 3)
Fri 7/2 13-15 Q14 Discussion I (in english) (PK/BM) (group 2)
Fri 7/2 13-15 Q15 Discussion I (AE/BS) (group 1)
Tue 11/2 10-12 FD5 Intro structure pred, CASP, SS pred, Modeling (BM) (in English) [AL:237-247]
Thu 13/2 10-12 FD5 Fold recognition, new fold methods (BM) (in English) [AL:247-263]
Fri 14/2 8-12 XK31-32Multiple sequence methods (JFS/EG/ML) (group 2)
Tue 18/2 10-12 FD5 Molecular evolution (BS) [AL:102-108]
Wed 19/2 8-12 XK31-32Multiple sequence methods (BW/KM/PU) (group 3)
Wed 19/2 13-17 XK31-32Structure predictions and Phylogeny (BW/KM/PU) (group 1)
Thu 20/2 10-12 FD5 Proteomics (SC) (In English)
Fri 21/2 8-12 XK31-32Structure predictions and Phylogeny (JFS/EG/ML) (group 2)
Mon 24/2 13-17 XK31-32Structure predictions and Phylogeny (BW/KM/PU) (group 3)
Tue 25/2 10-12 FD5 Microarrays (KMa) (in english)
Wed 26/2 8-12 XK31-32Project (JFS/EG/ML) (group 1)
Thu 27/2 10-12 FD5 System Biology (PK)
Fri 28/2 8-12 XK31-32Project (BW/KM/PU) (group 2)
Fri 28/2 13-17 XK31-32Project (JFS/EG/ML) (group 3)
Mon 3/3 13-15 FB51 Discussion II (PK/BM) (In English) (group 1)
Mon 3/3 13-15 FB54 Discussion II (AE/BS) (group 2)
Tue 4/3 10-12 FB55 Discussion II (BS/BM) (In English) (group 3)
Thu 6/3 8-12 FB51-53 Exam
Tue 29/4 8-12 FB51 Rest Exam
Tue 25/8 9-13 FD41 Rest Exam

Codes

  1. AE: Arne Elofsson
  2. OE: Olof Emanuelsson
  3. AL: Arthur M. Lesk: Introduction to bioinformatics
  4. BM: Bob MacCallum
  5. BS: Bengt Sennblad
  6. BW: Björn Wallner
  7. EG: Erik Granseth
  8. FS: Fredrik Sterky
  9. GvH: Gunnar von Heijne
  10. JFS: Johannes Frey-Skött
  11. KM: Karin Melen
  12. KMa: Kaveh Mashayekhi
  13. ML: Mats Lindskog
  14. PK: Per Kraulis
  15. PU: Per Unneberg
  16. SC: Susana Cristobal

This course uses the following book: Arthur M. Lesk: Introduction to bioinformatics Oxford University Press ISBN 0-19-925196-7 as well as material available from this website.

Check prices at pricerunner or order directly from OUP or Heffers

Arne Elofsson
Stockholm Bioinformatics Center,
Department of Biochemistry and Biophysics,
SCFAB
Stockholms Universitet
10691 Stockholm, Sweden
Tel: +46-8-5537 8568
Fax: +46-8-5537 8214
Mobile: +46-70-6951045
Email: arne@sbc.su.se
WWW: http://www.sbc.su.se//~arne/