1. Reconstructing Transcription Network in S.cerevisiae WANG Chao Oct. 4, 2004

2. Wei Wang, J. Michael Cherry, et al, A systematic approach to reconstructing transcription networks in Saccharomyces cerevisiae, (2002) Proc. Natl. Acad. Sci, Vol.99 16893-16898

3. Summary of Work Reconstructing transcription modules Identifying conditions/perturbations under which a particular transcription module is activated/deactivated

4. Information source from 1.Regulatory sequences 2.Genome-wide mRNA expression data 3.Functional annotation

5. Step One: Identification of transcription modules A.Identification of the conserved core of the DNA regulatory motif(s) by using the RE- DUCER algorithm B.Identification of all of the genes likely to be directly regulated by this TF by using an expression-weighted profile method

6. The expression-weighted profile method

8. Step Two: Determination of which transcription modules are activated (or deactivated) under particular experimental conditions

9. TFPE: transcription factor perturbation experiments X value: weights genes according to both the expression ratio and the frequency of occurrences of a specific motif P value of the Pearson correlation coefficient

11. Step Three: Inference of interactions between coactivated transcription modules by identifying genes shared by coactivated modules and other annotation information

12. The End