Seminar programme for 2007

Reverse chronologival order, new first

(16.01) - A code for transcription initiation in mammalian genomes (Martin C. Frith, Eivind Valen, Anders Krogh, Yoshihide Hayashizaki, Piero Carninci, Albin Sandelin)
(Sten Ilmjärv)
- Slides: pdf
- Article: BIIT DSpace link
(16.01) - Evolution and Selection in Yeast Promoters: Analyzing the Combined Effect of Diverse Transcription Factor Binding Sites (Daniela Raijman, Ron Shamir, Amos Tanay)
(Marko Jõemets)
- Slides: pdf
- Article: BIIT DSpace link
(19.12) - Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation (Vardhanabhuti, Saran; Wang, Junwen; Hannenhalli, Sridhar)
(Maarika Traat)
- Article: [[

https://www.bioinf.ebc.ee/intra/dspace/handle/123456789/526| BIIT DSpace]]

(12.12) - Distinguishing protein-coding and noncoding genes in the human genome (Clamp, Fry, Kellis, Lander et al).
(Konstantin Tretjakov)
- Slides: (pdf)
- Article: (PubMed)
(12.12) - Validating Gene Clusterings by Selecting Informative Gene Ontology Terms with Mutual Information (Aleksandr Tkachenko)
- Slides: (pdf)
- Article:
  - Costa, Souto, Schliep BIIT DSpace link
(05.12) - Extracting three way gene interactions from microarray data (Priit Adler)
- Slides: pdf
- Article: DSpace
(05.12) - Expression QTL (Raivo Kolde)
- Slides: (pdf)
- Articles:
  - From Nature Genetics Göring et al. Stranger et al. Dixon et al.
(28.11) - The Genomic Landscapes of Human Breast and Colorectal Cancers (Hedi Peterson)
- Slides:
- Article:
  - Wood et al BIIT DSpace link
(28.11) - Domain-enchanced analysis of microarray data using GO (Darja Krushevskaja)
- Article: BIIT DSpace link
- Slides: (pdf)
(21.11)
- Sten Ilmjärv
(14.11) - WebMOTIFS: automated discovery, filtering and scoring of DNA sequence motifs using multiple programs and Bayesian approaches (Marko Jõemets)
- Slides: (pdf)
- Article:
  - Romer, Kayombya, Fraenkel BIIT DSpace link
(14.11) - Discriminative motif discovery in DNA and protein sequences using the DEME Algorithm (Meelis Kull)
- Slides: (pdf)
- Article:
  - Redhead, Bailey BIIT DSpace link
(31.10) - Evolution and multilevel optimization of the genetic code (Marion Reuter)
- Slides: (pdf)
- Article:
  - Bollenbach et al Evolution and multilevel optimization of the genetic code
  - Itzkovitz, Alon The genetic code is nearly optimal for allowing additional information within protein-coding sequences
(24.10) - Regulatory Pathway Analysis by High-Throughput In Situ Hybridization (Aleksandr Tkatšenko)
- Slides: (pdf)
- Article:
  - Visel Regulatory Pathway Analysis by High-Throughput In Situ Hybridization
(24.10) - Systematic Gene Expression Mapping Clusters Nuclear Receptors According to Their Function in the Brain (Priit Adler)
- Slides: pdf
- Article: DSpace
(10.10) - A systems biology approach for pathway level analysis (Hedi Peterson)
- Slides: slides
- Article:
  - Draghici A systems biology approach for pathway level analysis
(10.10) - Hierarchical Tree Snipping: Clustering Guided by Prior Knowledge (Darja Krushevskaja)
- Slides: (pdf)
- Article: DSpase link
(03.10) - Regulatory motif finding and verification in ES cells (Raivo Kolde)
- Slides: (pdf)
- Article:
  - Grskovic et al. Systematic Identification of cis-Regulatory Sequences Active in Mouse and Human Embryonic Stem Cells