The transcriptional regulatory system plays a central role in directing gene expression changes in response to internal and external stimuli. In this talk, I will present our group's computational studies on transcription regulation in yeast, ranging from large-scale experimental studies to computational analyses of regulatory networks. In the first half I will introduce results from ChIp-chip experiments that identify genome-wide DNA-binding sites of transcription factors, particularly focusing on the cell cycle regulatory system. In the second half I will discuss how these observations fit in with the idea of a genomic regulatory network, and examine the effects of such networks on gene expression levels. Finally, I will introduce the concept of dynamic network usage in the context of transcription regulation, and how specific regulatory pathways are employed to bring about these transitions.
Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M: Genomic analysis of regulatory network dynamics. Nature, in press.
Babu MM, Luscombe NM, Aravind L, Gerstein M, Teichmann SA: Structure and evolution of transcriptional regulatory networks. Current Opinions in Structural Biology 14: 283–291. 10.1016/j.sbi.2004.05.004
Yu H, Luscombe NM, Qian J, Gerstein M: Genome-wide analysis of gene expression relationships in transcriptional regulatory networks. Trend in Genetics 19: 422–427. 10.1016/S0168-9525(03)00175-6
Horak CE, Luscombe NM, Qian J, Bertone P, Piccirillo S, Gerstein M, Snyder M: Complex transcriptional circuitry at the G1/S transition in Saccharomyces cerevisiae. Genes and Development 2002, 16: 3017–3033. 10.1101/gad.1039602
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Luscombe, N. Transcription regulation: a genomic network. BMC Bioinformatics 6 (Suppl 3), S1 (2005). https://doi.org/10.1186/1471-2105-6-S3-S1