|
| Status |
Public on Dec 11, 2015 |
| Title |
CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
Spatial genome organization and its effect on transcription remains a fundamental biological question. We applied an advanced ChIA-PET strategy to comprehensively map higher-order chromosome folding and chromatin interactions mediated by CTCF and RNAPII with haplotype specificity and nucleotide resolution in different human cell lineages. We find that CTCF-mediated interaction anchors serve as structural foci for spatial organization of constitutive genes concordant with CTCF-motif orientation, whereas RNAPII interacts within these structures by selectively drawing cell-type-specific genes towards CTCF-foci and forming RNAPII foci for coordinated transcription. Furthermore, allelic-variants linked to disease susceptibility are found to impact chromatin topology and transcriptional regulation. Importantly, 3D-genome simulation suggested a model of chromatin folding around chromosomal axes, where CTCF involves in defining the interface between condensed and open compartments for structural regulation. Our new 3D-genome strategy thus provides novel insights to explore the topological mechanism of human variations and diseases.
|
| |
|
| Overall design |
Investigation of chromatin organization and function by CTCF ChIA-PET
|
| |
|
| Contributor(s) |
Luo OJ, Tang Z, Li X, Ruan Y |
| Citation(s) |
26686651, 27625391 |
| Submission date |
Sep 09, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Oscar J. Luo |
| E-mail(s) |
Oscar.Luo@jax.org
|
| Organization name |
The Jackson Laboratory for Genomic Medicine
|
| Street address |
10 Discovery Dr
|
| City |
Farmington |
| State/province |
CT |
| ZIP/Postal code |
06030 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
|
| Samples (6)
|
|
| Relations |
| BioProject |
PRJNA295132 |
| SRA |
SRP063492 |
Less...
More...