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Reconstructing Transcription Network in S.cerevisiae

Reconstructing Transcription Network in S.cerevisiae. WANG Chao Oct. 4, 2004. 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. Summary of Work.

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Reconstructing Transcription Network in S.cerevisiae

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  1. Reconstructing Transcription Network inS.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 • Regulatory sequences • Genome-wide mRNA expression data • Functional annotation

  5. Step One: Identification of transcription modules • Identification of the conserved core of the DNA regulatory motif(s) by using the RE-DUCER algorithm • 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

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

  8. TFPE: transcription factor perturbation experimentsX value: weights genes according to both the expression ratio and the frequency of occurrences of a specific motifP value of the Pearson correlation coefficient

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

  10. The End

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