Huisinga KL and Pugh BF (2007) A TATA binding protein regulatory network that governs transcription complex assembly. Genome Biol 8(4):R46
Abstract: ABSTRACT: BACKGROUND: Eukaryotic genes are controlled by proteins that assemble stepwise into a transcription complex. How the individual biochemically-defined assembly steps are coordinated and applied throughout a genome is largely unknown. Here, we model and experimentally test a portion of the assembly process involving the regulation of the TATA binding protein (TBP) throughout the yeast genome. RESULTS: Biochemical knowledge is used to formulate a series of coupled TBP regulatory reactions involving TFIID, SAGA, NC2, Mot1, and promoter DNA. The reactions are then linked to basic segments of the transcription cycle and modeled computationally. A single framework is employed, allowing the contribution of specific steps to vary from gene to gene. Promoter binding and transcriptional output are measured genome-wide using ChIP-chip and expression microarray assays. Mutagenesis is used to test the framework by shutting down specific parts of the network. CONCLUSION: The model accounts for the regulation of TBP at most transcriptionally active promoters and provides a conceptual tool for interpreting genome-wide data sets. The findings further demonstrate the interconnections of TBP regulation on a genome-wide scale.
|Status: Published||Type: Journal Article||PubMed ID: 17407552|
Topics addressed in this paper
Number of different genes curated to this paper: 11
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|Topics||Topics not linked to Genes||Genes linked to topics (#1 - 10 )|
|Genomic co-immunoprecipitation study|
|Genomic expression study|
|Topics||Genes linked to topics (#11 )|