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Series GSE17067 Query DataSets for GSE17067
Status Public on May 13, 2010
Title A quantitative model of transcription regulation reveals the role of non-conserved enhancers
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
Genome binding/occupancy profiling by high throughput sequencing
Summary We identify sites of combinatorial control by performing high throughput ChIP experiments on p300, CREB-binding protein (CBP), the deacetylase SIRT1 and on multiple DNA-binding transcription factors in three different tissues. We present a quantitative model of transcriptional regulation that reveals the contribution of each binding site to tissue-specific gene expression in several mouse cell types. Binding to both evolutionarily conserved and non-conserved sequences is found to contribute significantly to transcriptional regulation. We demonstrate that binding location strongly predicts the expression level of nearby genes.
Overall design Liver hepatocytes and cerebellum tissue were harvested from male C57BL/6J mice. RNA was extracted and hybridized to Affymetrix arrays. Examination of transcriptional regulator binding in three mouse tissues by ChIP-IP using tiling arrays. Examination of CBP binding in mouse liver and cerebellum by ChIP-seq.
Contributor(s) MacIsaac K, Fraenkel E
Citation(s) 20442865
Submission date Jul 13, 2009
Last update date May 15, 2019
Contact name Kenzie MacIsaac
Phone 617-253-2042
Fax 617-395-2661
Organization name MIT
Street address 77 Massachusetts Ave.
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
Platforms (4)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
GPL8846 Agilent Mus musculus proximal promoter 185k array slide 1
GPL8847 Agilent Mus musculus proximal promoter 185k array slide 2
Samples (28)
GSM427046 Liver, biological rep 1
GSM427047 Liver, biological rep 2
GSM427048 Liver, biological rep 3
SRA SRP002283
BioProject PRJNA119775

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE17067_RAW.tar 978.2 Mb (http)(custom) TAR (of BED, CEL, GPR, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data included within Sample table
Processed data provided as supplementary file

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