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| Status |
Public on Apr 14, 2020 |
| Title |
A WIZ/Cohesin/CTCF complex anchors DNA loops to define gene expression and cell identity [ChIP-Seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Purpose: Chromatin architecture is an important regulator of gene expression, but details of how DNA loops form and function remain unclear. The purpose of this study is to assess the role of Widely Interspaced Zinc-fingers protein (WIZ) in gene regulation and DNA looping.
Method: Genome wide binding patterns of known architectural proteins in the presence or absence of WIZ were assessed via chromatin immunoprecipitation followed by high throughput sequencing (ChIP-seq) in both wildtype and CRISPR-Cas9 genome edited WIZ deletion mouse embryonic stem cells (mESCs).
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| Overall design |
ChIP-seq was performed in wild type mESCs in duplicate for CTCF, SMC1A, RAD21, and WIZ. ChIP-seq was performed in CRISPR-Cas9 genome edited WIZ deletion mESCs in duplicate for Rad21 and CTCF.
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| Contributor(s) |
Dowen JM, Justice MN, Carico ZM, Stefan HC |
| Citation(s) |
32294452 |
| |
| Submission date |
Sep 11, 2019 |
| Last update date |
May 18, 2020 |
| Contact name |
Jill Dowen |
| E-mail(s) |
jilldowen@unc.edu
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| Organization name |
UNC Chapel Hill
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| Street address |
250 Bell Tower Drive, CB 7100 3360 Genome Sciences Building
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| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599 |
| Country |
USA |
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| Platforms (3) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE137285 |
A WIZ/Cohesin/CTCF complex anchors DNA loops to define gene expression and cell identity |
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| Relations |
| BioProject |
PRJNA565019 |
| SRA |
SRP221394 |
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