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| Status |
Public on Nov 25, 2020 |
| Title |
Transcription Factor GATA2 Promotes Chromatin Remodeling at the Super-Enhancers of the Key Mast Cell Identity Genes and Primes Enhancers to Respond to Antigenic Stimulation [ChIP-seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Mast cells are critical effectors in causing allergic inflammation and in protecting against certain parasitic infections. We previously demonstrated that transcription factors GATA2 and MITF are the mast cell lineage-determining factors (LDTFs). However, it is unclear whether these LDTFs play a role in regulating chromatin accessibility at the enhancer regions. In this study, we demonstrate that GATA2 promotes chromatin accessibility at the super-enhancers of mast cell identity genes and primes both the typical and super-enhancers at the genes that respond to antigenic stimulation. We found that the number and densities of GATA2, but not MITF, -bound sites at the super-enhancers were several folds higher than that at the typical enhancers. Our study reveals that GATA2 promotes robust gene transcription to maintain mast cell identity and respond to antigenic stimulation simply by binding to a larger number of GATA2 binding sites available at the super-enhancers of the key mast cell genes.
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| Overall design |
Histone modifications in unstimulated or stimulated WT and Gata2 KO BMMCs, in duplicate, using Illumina NovaSEQ6000 platform
GATA2 binding in unstimulated or stimulated WT BMMCs, in duplicate, using Illumina NovaSEQ6000 platform
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| Contributor(s) |
Li Y, Huang H |
| Citation(s) |
33479210 |
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| Submission date |
Feb 19, 2020 |
| Last update date |
Jan 25, 2021 |
| Contact name |
Hua Huang |
| E-mail(s) |
HuangH@njhealth.org
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| Organization name |
National Jewish Health
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| Department |
Biomedical Research
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| Street address |
1400 Jackson St
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| City |
Denver |
| State/province |
CO |
| ZIP/Postal code |
80206 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (36)
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| GSM4321045 |
BMMCs, WT_ST_H3K4me1 rep2 |
| GSM4321046 |
BMMCs, WT_UN_H3K27ac rep1 |
| GSM4321047 |
BMMCs, WT_UN_H3K27ac rep2 |
| GSM4321048 |
BMMCs, WT_ST_H3K27ac rep1 |
| GSM4321049 |
BMMCs, WT_ST_H3K27ac rep2 |
| GSM4321050 |
BMMCs, WT_UN_Input |
| GSM4321051 |
BMMCs, WT_ST_Input |
| GSM4321052 |
BMMCs, Gata2_WT_UN_H3K4me1 rep1 |
| GSM4321053 |
BMMCs, Gata2_WT_UN_H3K4me1 rep2 |
| GSM4321054 |
BMMCs, Gata2_WT_ST_H3K4me1 rep1 |
| GSM4321055 |
BMMCs, Gata2_WT_ST_H3K4me1 rep2 |
| GSM4321056 |
BMMCs, Gata2_KO_UN_H3K4me1 rep1 |
| GSM4321057 |
BMMCs, Gata2_KO_UN_H3K4me1 rep2 |
| GSM4321058 |
BMMCs, Gata2_KO_ST_H3K4me1 rep1 |
| GSM4321059 |
BMMCs, Gata2_KO_ST_H3K4me1 rep2 |
| GSM4321060 |
BMMCs, Gata2_WT_UN_H3K27ac rep1 |
| GSM4321061 |
BMMCs, Gata2_WT_UN_H3K27ac rep2 |
| GSM4321062 |
BMMCs, Gata2_WT_ST_H3K27ac rep1 |
| GSM4321063 |
BMMCs, Gata2_WT_ST_H3K27ac rep2 |
| GSM4321064 |
BMMCs, Gata2_KO_UN_H3K27ac rep1 |
| GSM4321065 |
BMMCs, Gata2_KO_UN_H3K27ac rep2 |
| GSM4321066 |
BMMCs, Gata2_KO_ST_H3K27ac rep1 |
| GSM4321067 |
BMMCs, Gata2_KO_ST_H3K27ac rep2 |
| GSM4321068 |
BMMCs, Gata2_WT_UN_Input |
| GSM4321069 |
BMMCs, Gata2_WT_ST_Input |
| GSM4321070 |
BMMCs, Gata2_KO_UN_Input |
| GSM4321071 |
BMMCs, Gata2_KO_ST_Input |
| GSM4751984 |
WT_UN_GATA2 rep1 |
| GSM4751985 |
WT_UN_GATA2 rep2 |
| GSM4751986 |
WT_ST_GATA2 rep1 |
| GSM4751987 |
WT_ST_GATA2 rep2 |
| GSM4751988 |
WT_UN_Input |
| GSM4751989 |
WT_ST_Input |
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| This SubSeries is part of SuperSeries: |
| GSE145612 |
Transcription Factor GATA2 Promotes Chromatin Remodeling at the Super-Enhancers of the Key Mast Cell Identity Genes and Primes Enhancers to Respond to Antigenic Stimulation |
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| Relations |
| BioProject |
PRJNA607532 |
| SRA |
SRP250014 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE145544_RAW.tar |
26.9 Gb |
(http)(custom) |
TAR (of BEDGRAPH, TDF) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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