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Series GSE123711 Query DataSets for GSE123711
Status Public on Jun 21, 2019
Title p63 cooperates with CTCF to modulate chromatin accessibility and architecture in skin keratinocytes
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Here we integrated multi-omics profiles including transcriptomics, DNA accessibility and capture Hi-C data to explore how p63 shapes local chromatin architecture in skin keratinocytes isolated from EEC syndrome patients. Surprisingly, we observed decreased chromatin accessibility in a number of DNA looping nodes which were co-mediated by p63 and CTCF. Our findings not only identified a new aspect of the bookmark function of p63, but also shed light on the disease mechanism underlined p63 dysfunction. Therefore, we propose p63 as a spatial genome organizer by modulating a subset of DNA loops with CTCF and therefore fine-tuning transcription programs required for skin keratinocytes.
Overall design ATAC-seq, CTCF ChIP-Seq of both control and p63 mutant keratinocytes on the proliferation stage
Contributor(s) QU J, YI G, ZHOU H
Citation(s) 31164150
Submission date Dec 12, 2018
Last update date Jun 14, 2022
Contact name Jo Huiqing Zhou
Organization name Radboud University
Street address Geert Grooteplein 26/28
City Nijmegen
ZIP/Postal code 6525GA
Country Netherlands
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (9)
GSM3509943 HKC_day0-1_ATAC-Seq
GSM3509944 HKC_day0-2_ATAC-Seq
GSM3509945 HKC_day0_CTCF ChIP-Seq
BioProject PRJNA509627
SRA SRP173326

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Supplementary file Size Download File type/resource
GSE123711_RAW.tar 2.2 Gb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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