|
| 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 |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Feb 14, 2018 |
| Last update date |
Mar 19, 2019 |
| Contact name |
Jerome Menet |
| E-mail(s) |
menetlab@gmail.com
|
| 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)
|
|
| This SubSeries is part of SuperSeries: |
| GSE110604 |
Characterization of tissue-specific BMAL1 cistromes reveals new roles for enhancer-enhancer interactions in regulating rhythmic transcription |
|
| Relations |
| BioProject |
PRJNA434105 |
| SRA |
SRP132870 |
Less...
More...