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Series GSE47142 Query DataSets for GSE47142
Status Public on Jan 06, 2014
Title CLK:BMAL1 is a pioneer-like transcription factor [MNase-Seq]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The mammalian circadian clock relies on the master genes CLOCK (CLK) and BMAL1 and drives rhythmic gene expression to regulate biological functions under circadian control. We recently uncovered a surprising disconnect between the rhythmic binding of CLK:BMAL1 on DNA and the transcription of its target genes, suggesting that they are regulated by as yet uncharacterized mechanisms. Here we show that rhythmic CLK:BMAL1 DNA binding promotes rhythmic chromatin opening. The underlying mechanisms include CLK:BMAL1 binding to nucleosomes and rhythmic chromatin modifications, including the incorporation of the histone variant H2A.Z. This rhythmic chromatin remodeling mediates the rhythmic binding of other transcription factors adjacent to CLK:BMAL1, suggesting that the activity and the tissue-specific expression of these other transcription factors contribute to the genome-wide CLK:BMAL1 heterogeneous transcriptional output. These data therefore indicate that the clock regulation of transcription relies on the rhythmic regulation of chromatin accessibility and suggest that the concept of pioneer function extends to acute gene regulation, well beyond the current confines of developmental/cell specification.
Overall design Mouse liver nucleosome profile assayed by MNase-Seq over 6 time points of the 24h light:dark cycle (4 wild-type and 4 Bmal1-/- mice per time point). Illumina libraries containing a mononucleosome insert were sequenced using Ilumina HiSeq2000.
Contributor(s) Menet JS, Pescatore S, Rosbash M
Citation(s) 24395244, 29300726
Submission date May 21, 2013
Last update date Jul 09, 2019
Contact name Jerome S Menet
Organization name Texas A&M University
Department Dept of Biology
Street address 301 Old Main Drive, Building 1530, ILSB
City College Station
State/province TX
ZIP/Postal code 77843
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (47)
GSM1145622 Mnase_WT11_ZT02
GSM1145623 Mnase_WT11_ZT06
GSM1145624 Mnase_WT11_ZT10
This SubSeries is part of SuperSeries:
GSE47145 CLK:BMAL1 is a pioneer-like transcription factor
BioProject PRJNA204308
SRA SRP022946

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Supplementary file Size Download File type/resource 891.7 Mb (ftp)(http) BW 623.0 Mb (ftp)(http) BW 933.0 Mb (ftp)(http) BW 895.0 Mb (ftp)(http) BW 581.5 Mb (ftp)(http) BW 472.4 Mb (ftp)(http) BW 933.0 Mb (ftp)(http) BW 998.2 Mb (ftp)(http) BW 974.6 Mb (ftp)(http) BW 930.1 Mb (ftp)(http) BW 899.7 Mb (ftp)(http) BW 891.3 Mb (ftp)(http) BW
GSE47142_Table_GEO_CB3217_GenomicLocation_AllPeaks.txt.gz 65.7 Kb (ftp)(http) TXT
GSE47142_Table_GEO_MNase_signal_at_CB3217peaks_ALL.txt.gz 1.5 Mb (ftp)(http) TXT
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Raw data are available in SRA

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