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Series GSE95199 Query DataSets for GSE95199
Status Public on Apr 12, 2017
Title GRHL3 binding and the enhancer landscape are reorganized during transitions between different functional states of epidermal keratinocytes [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The genomic mechanisms underlying progressive, irreversible cell lineage commitments and differentiation, which include large scale chromatin re-organization, transcription factor binding, and chromatin modifications, have been well defined. However, we know little about the chromatin changes during transitions between transient cell states such as cell migration. Here we demonstrate the formation of unique complements of typical enhancers and super-enhancers as human progenitor keratinocytes either differentiate or migrate. Unique super-enhancers for each cellular state are linked to gene expression that confer functions associated with each cell state, and sequence variants associated with skin diseases are enriched within super-enhancers. GRHL3, a factor that promotes both differentiation and migration, exhibits prominent super-enhancer interactions in differentiating keratinocytes, while during migration, it preferentially binds to promoters along with REST, repressing the expression of migration inhibitors. Key epidermal differentiation transcription factor genes, including GRHL3, are located within super-enhancers, and many of these transcription factors in turn bind to and regulate super-enhancers. Of note, GRHL3 also represses the formation of a number of progenitor and non-keratinocyte super-enhancers in differentiating keratinocytes. Thus, coordinated GRHL3 binding and enhancer rearrangements regulate the functional states of keratinocytes.
Overall design GRHL3 ChIP was performed in duplicate on primary human keratinocytes (NHEK) 12 hours after induction of migration
Contributor(s) Klein RH, Andersen B
Citation(s) 28445475
Submission date Feb 22, 2017
Last update date May 15, 2019
Contact name Bogi Andersen
Organization name University of California, Irvine
Department Medicine
Lab Andersen
Street address 839 Health Sciences Dr.
City Irvine
State/province CA
ZIP/Postal code 92697
Country USA
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (2)
GSM2498560 NHEKM-GRHL3-rep1
GSM2498561 NHEKM-GRHL3-rep2
This SubSeries is part of SuperSeries:
GSE94471 GRHL3 binding and the enhancer landscape are reorganized during transitions between different functional states of epidermal keratinocytes
BioProject PRJNA376403
SRA SRP100529

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Supplementary file Size Download File type/resource
GSE95199_RAW.tar 620.0 Kb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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