|
| Status |
Public on Nov 17, 2020 |
| Title |
UTX/KDM6A suppresses AP-1 and a gliogenesis program during neural differentiation of human pluripotent stem cells[ChIP-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
UTX/KDM6A is known to promote open chromatin structure to facilitate gene activation. Although UTX is important for normal and cancer development, its molecular activities in developmental gene regulation remain unclear. Using genetic knockout of UTX in human embryonic stem cells, we show that UTX promotes human pluripotency and suppresses neural differentiation. In human neural stem cells (hNSCs), UTX modulates self-renewal, is required for neuronal differentiation, and suppresses glial/astrocytic differentiation by positively and negatively regulating its target genes. 70% of UTX-occupied regions are associated with epigenetic modifications known to be influenced by UTX, and UTX knockout leads to significant changes in expression of more than 50% of its target genes but epigenetic changes in less than 6% of its target genes. UTX likely affects gene expression via alternative molecular activities in hNSCs. Our findings reveal new functions of UTX in gene regulation and cell fate decisions in human stem cells.
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| |
|
| Overall design |
Examination of transcription factors as UTX/KDM6A binding sites in hNSC by ChIP-Seq, along with ATAC-Seq, ChIP-Seq of H3K4me3, H3K27me3 and H3K27ac in WT and UTX KO Neuronal Maturation cells. Intergrated analysis with transcriptome.
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| |
|
| Contributor(s) |
Mulvey B, Xu B, C. Peng J |
| Citation(s) |
32977832 |
| |
| Submission date |
Feb 28, 2019 |
| Last update date |
Nov 17, 2020 |
| Contact name |
Beisi Xu |
| E-mail(s) |
[email protected]
|
| Organization name |
St Jude Children's Research Hosipital
|
| Department |
Center for Applied Bioinformatics
|
| Street address |
262 Danny Thomas Pl
|
| City |
Memphis |
| State/province |
Tennessee |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
|
| Platforms (3) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (27)
|
|
| This SubSeries is part of SuperSeries: |
| GSE127515 |
UTX/KDM6A suppresses AP-1 and a gliogenesis program during neural differentiation of human pluripotent stem cells |
|
| Relations |
| BioProject |
PRJNA524891 |
| SRA |
SRP187097 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE127512_H3K27Ac-AB2-hNSC-H7-UTXKO.hg19.narrowPeak.gz |
584.0 Kb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K27Ac-AB2-hNSC-H7-WT.hg19.narrowPeak.gz |
812.5 Kb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K27Ac-AB2-hNSC-H9-UTXKO.hg19.narrowPeak.gz |
1.1 Mb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K27Ac-AB2-hNSC-H9-WT.hg19.narrowPeak.gz |
1.1 Mb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K27me3.hNSC-UTXKO.Rep.SharpBroad.bed.gz |
104.9 Kb |
(ftp)(http) |
BED |
| GSE127512_H3K27me3.hNSC-WT.Rep.SharpBroad.bed.gz |
68.8 Kb |
(ftp)(http) |
BED |
| GSE127512_H3K4me3-AB2-hNSC-H7-UTXKO.hg19.narrowPeak.gz |
395.0 Kb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K4me3-AB2-hNSC-H7-WT.hg19.narrowPeak.gz |
463.8 Kb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K4me3-AB2-hNSC-H9-UTXKO.hg19.narrowPeak.gz |
466.5 Kb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_H3K4me3-AB2-hNSC-H9-WT.hg19.narrowPeak.gz |
469.5 Kb |
(ftp)(http) |
NARROWPEAK |
| GSE127512_UTX-hNSC.SICER.bed.gz |
135.6 Kb |
(ftp)(http) |
BED |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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