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Series GSE59460 Query DataSets for GSE59460
Status Public on Jan 06, 2015
Title Circadian Enhancers Coordinate Multiple Phases of Rhythmic Gene Transcription In Vivo
Organism Mus musculus
Experiment type Expression profiling by array
Summary Mammalian transcriptomes display complex circadian rhythms with multiple phases of gene expression that cannot be accounted for by current models of the molecular clock.  We have determined the underlying mechanisms by measuring nascent RNA transcription around the clock in mouse liver. Unbiased examination of eRNAs that cluster in specific circadian phases identified functional enhancers driven by distinct transcription factors (TFs). We further identify on a global scale the components of the TF cistromes that function to orchestrate circadian gene expression. Integrated genomic analyses also revealed novel mechanisms by which a single circadian factor controls opposing transcriptional phases. These findings shed new light on the diversity and specificity of TF function in the generation of multiple phases of circadian gene transcription in a mammalian organ.
The goal of this experiment was to determine direct targets of Rev-erb{alpha} in mouse liver. All samples were collected at ZT10, when Rev-erb{alpha} protein levels and genomic binding are maximal.
Overall design All mice were housed and harvested together (n=5 per genotype). All mice were male, 10-12 week old on C57Bl/6 background. RNA was extracted, processed, and hybridized from each mouse liver individually (each sample represents a single mouse).
Contributor(s) Fang B, Everett LJ, Jager J, Briggs E, Armour SM, Feng D, Roy A, Gerhart-Hines Z, Sun Z, Lazar MA
Citation(s) 25416951
Submission date Jul 16, 2014
Last update date Mar 04, 2019
Contact name Logan J Everett
Organization name U.S. Environmental Protection Agency
Department Office of Research and Development
Lab Center for Computational Toxicology and Exposure
Street address 109 T.W. Alexander Dr
City RTP
State/province North Carolina
ZIP/Postal code 27711
Country USA
Platforms (1)
GPL6246 [MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [transcript (gene) version]
Samples (10)
GSM1437421 WT_22719_382
GSM1437422 WT_22720_399
GSM1437423 WT_22721_406
BioProject PRJNA255376

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
GSE59460_RAW.tar 43.1 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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