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Series GSE110603 Query DataSets for GSE110603
Status Public on May 08, 2018
Title Characterization of tissue-specific BMAL1 cistromes reveals new roles for enhancer-enhancer interactions in regulating rhythmic transcription [ChIA-PET]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The mammalian circadian clock relies on the transcription factor CLOCK:BMAL1 to coordinate the rhythmic expression of thousands of genes and enable biological functions to anticipate the daily environmental variations. Consistent with the wide range of biological functions under clock control, rhythmic gene expression is tissue-specific, and this even if the clockwork mechanism is identical in every cell. Here we show that BMAL1 DNA binding is largely tissue-specific, through mechanisms involving differences in chromatin accessibility between tissues as well as co-binding of tissue-specific transcription factors. Our results also indicate that the ability of BMAL1 to drive tissue-specific rhythmic transcription not only relies on the activity of BMAL1 cis-regulatory elements (CREs), but also on the activity of neighboring CREs. Characterization of the physical interactions between BMAL1 CREs and other CREs by RNA Polymerase II ChIA-PET in the mouse liver reveals that most interactions are stable over the course of the day, and suggests that BMAL1-mediated rhythmic transcription relies on its ability to regulate the transcriptional activity of other CREs. Our data therefore suggest that much of BMAL1 target gene transcription depends on BMAL1 capacity at rhythmically regulating a network of enhancers.
Overall design Detection of mouse liver chromatin interactions mediated by RNA Polymerase II
Contributor(s) Beytebiere JR, Menet JS
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Submission date Feb 14, 2018
Last update date Mar 19, 2019
Contact name Jerome Menet
Organization name Texas A&M University
Department Biology
Lab Menet Laboratory
Street address Texas A&M University Biology Department 3258 TAMU College Station, TX 77843
City College Station
State/province Texas
ZIP/Postal code 77843
Country USA
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (8)
GSM3003987 JM08_ChIA-PET-1_ZT06_rep1
GSM3003988 JM08_ChIA-PET-1_ZT06_rep2
GSM3003989 JM08_ChIA-PET-1_ZT18_rep1
This SubSeries is part of SuperSeries:
GSE110604 Characterization of tissue-specific BMAL1 cistromes reveals new roles for enhancer-enhancer interactions in regulating rhythmic transcription
BioProject PRJNA434105
SRA SRP132870

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Supplementary file Size Download File type/resource
GSE110603_All_PETs_all_replicates.txt.gz 31.0 Mb (ftp)(http) TXT
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