lecture18

Tfs to regulate gene expression different stimuli

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Unformatted text preview: ontrol of TFs to regulate Gene Expression Different stimuli activate NFκB with different temporal profiles. Temporal control is important to specify which genes are activated. What is the mechanism? 1. NFκB must be coincident with other TFs because they function cooperatively. 2. NFκB must be on the promoters before or after other TFs (e.g. if one TF is required to open chromatin and only then the other TF is able to bind) 1810 High-through put gene expression studies Genome-wide expression profiling ChIP-chip Bioinformatics Promoter Code 1811 The microarray 1812 Stimulus-responsive Gene Expression Temporal clusters contain genes that functionally cooperate. In response to serum: wound healing response 1813 Which gene expression programs require a specific TF? nfκb-/LPS TNF LPS TNF use knockout A: 79 B: 36 C: 22 D: 60 E: 111 F: 16 G: 43 H: 51 I: 44 J: 134 K: 73 NFκB is required for all stimulus-specific gene expression 1814 fibroblasts Cell-type-specific expression programs to the same stimulus MEF LPS: 0 8 MAC 0 6 hr A B 1142 genes C D E 1815 Gene expression profiles in disease: distinguishing between different forms of cancer 1816 Gene Expression profiling (chip): Some Applications: What genes are induced in response to a stimulus? Is a p...
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