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Series GSE108115 Query DataSets for GSE108115
Status Public on Feb 15, 2019
Title UTX and 53BP1 co-regulate genetic programs for neural differentiation of human embryonic stem cells [RNA-seq]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary UTX is a histone H3 lysine 27 demethylase required for development. However, the mechanisms underlying developmental gene regulation by UTX are unclear. Here, we discovered a molecular interaction between UTX and 53BP1 that regulates gene expression in a human neurogenesis model. Human 53BP1 contains a UTX-binding site that diverges from its mouse homolog by 41%, and our data suggest that the UTX-53BP1 interaction is conserved in primates but not rodents. ChIP-Seq revealed that the genome-wide targets of UTX and 53BP1 overlap by 84%. We used CRISPR-Cas9 to generate mutations of 53BP1 and UTX in human embryonic stem cells, and found that both 53BP1 and UTX are required to promote the expression of hundreds of neurogenic genes during neural differentiation. Further, 53BP1 is required for human neural progenitor differentiation into neurons. Our findings suggest that the UTX-53BP1 interaction controls gene expression important for neural differentiation in humans.
Overall design Examination of 2 transcription factors as 53BP1 and UTX binding sites in hESC and hNPC, H3K27me3 and H3K27ac in WT and 53BP1 KO cells. Intergrated analysis with transcriptome.
Citation(s) 30718900
Submission date Dec 14, 2017
Last update date Mar 27, 2019
Contact name Beisi Xu
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)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (27)
GSM2890248 RNA-hESC-53BP1KO1 replicate 1
GSM2890249 RNA-hESC-53BP1KO2 replicate 1
GSM2890250 RNA-hESC-53BP1KO3 replicate 1
This SubSeries is part of SuperSeries:
GSE108116 UTX and 53BP1 co-regulate genetic programs for neural differentiation of human embryonic stem cells
BioProject PRJNA422469
SRA SRP126791

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE108115_RAW.tar 2.3 Mb (http)(custom) TAR (of TXT)
GSE108115_RNA-Organoid-D45.all.counts.txt.gz 383.0 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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