ENAapplication/xmlftp.sra.ebi.ac.uk/vol1/fastq/SRR152/003/SRR1528623/SRR1528623.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/009/SRR1528619/SRR1528619.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/001/SRR1528621/SRR1528621.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/007/SRR1528617/SRR1528617.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/005/SRR1528625/SRR1528625.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/008/SRR1528628/SRR1528628.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/006/SRR1528626/SRR1528626.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/002/SRR1528622/SRR1528622.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/004/SRR1528624/SRR1528624.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/000/SRR1528620/SRR1528620.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/008/SRR1528618/SRR1528618.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/007/SRR1528627/SRR1528627.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR152/006/SRR1528616/SRR1528616.fastq.gzprimaryOK2000000GenomicsMolecular Developmental Biology, Radboud University Nijmegenhttps://www.ebi.ac.uk/ena/browser/view/PRJNA256315Homo sapiensTightly controlled gene expression orchestrated by the transcription factor p63 during epithelial differentiation is important for development of epithelial-related structures such as epidermis, limb and craniofacial regions. How p63 regulates spatial and temporal expression of its target genes during these developmental processes is however not yet clear. By epigenomics profiling in stem cells established from one of these epithelial structures, the epidermis, we provide a global map of p63-bound regulatory elements that are categorized as single enhancers and clustered enhancers during epidermal differentiation. Transcriptomics analysis shows dynamic gene expression patterns during epidermal differentiation that correlates with the activity of p63-bound enhancers rather than with p63 binding itself. Only a subset of p63-bound enhancers is active in epidermal stem cells, and inactive p63-bound enhancers appear to function in gene regulation during the development of other epithelial tissues. Our data suggest a paradigm that p63 bookmarks genomic loci during the commitment of the epithelial lineage and regulates gene expression in different epithelial tissues through tissue-specific active enhancers. The catalogue of differentially expressed epidermal genes including non-coding RNAs and epithelial enhancers reported here provides a rich resource for studies of epithelial development and related diseases. Overall design: Different stages of keratinocyte differentiationENAtranscription factor, 5630400A09Rik, T-cell leukemia, Materials, Epithelial Cell, P63, p51, AI462811, AGL4, Gene, Glandular Epithelial, SEPALLATA 2, Glandular, CLIMP-63, NBP, TP63, VPS38, Chronic ulcerative stomatitis protein, Tumor protein p73-like, zinc ion regulated core promoter proximal region sequence-specific DNA binding, Squamous Epithelial Cells, DHTX, AIS, p63, RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity, B(p51B), p65, TP73L, sequence-specific DNA binding, A230108M10Rik, Ket, KET, Squamous Epithelial, TRic, Epithelial, AI528772, P51/P63, OFC8, Genetic, DmelCG13176, B(p51A), p73H, CUSP, F10N7_150, Adenomatous Epithelial, Climp-63, tp73l-A, RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity, ket, DmelCG6757, RNA polymerase II proximal promoter sequence-specific DNA binding, Epithelial Cells, SHFM4, Transitional Epithelial Cells, copper ion regulated proximal promoter sequence-specific DNA binding, AGAMOUS-like 4, zinc ion regulated proximal promoter sequence-specific DNA binding, sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity, trp63, Squamous Epithelial Cell, Transformation-related protein 63, Glandular Epithelial Cell, TRANSCRIPTION FACTOR, Tp63, RNA polymerase II distal enhancer sequence-specific binding, Transitional Epithelial Cell, Transitional, RNA polymerase II core promoter proximal region sequence-specific binding, tp73l, Squamous Cells, Trp53rp1, Keratinocyte transcription factor KET, Adenomatous, zinc ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, homeobox 1, Squamous, 4930408G01Rik, metal ion regulated sequence-specific DNA binding RNA polymerase II transcription factor activity, Transitional Epithelial, Cistrons, Cell, transcription factor activity, Cct1, Cuboidal Glandular Epithelial Cells, RNA polymerase II transcription factor activity, P51|P63, Genetic Materials, p73L, sequence-specific distal enhancer binding RNA polymerase II transcription factor activity, TP53L, Columnar Glandular Epithelial Cells, 63-kDa cytoskeleton-linking membrane protein, p53CP, TAFI68, metal ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, KNOTTED1-like homeobox gene 5, c-cpn, CG13176, F14P3.4, Adenomatous Epithelial Cell, Adenomatous Epithelial Cells, Squamous Cell, np63, EEC3, TP53CP, CG6757, F14P3_4, Tafi86, Glandular Epithelial Cells, sequence-specific DNA binding RNA polymerase II transcription factor activity, metal ion regulated core promoter proximal region sequence-specific binding, copper ion regulated core promoter proximal region sequence-specific binding, Transcription factor, RHS, F10N7.150, P73l, Material, Tcp-1, ERGIC-63, p40, Cells, dSH3PX1, copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity, Ccta, LMS, Cistron, CCT, DSH3PX1, Genetic Material., metal ion regulated sequence-specific DNA binding, Xp63, metal ion regulated proximal promoter sequence-specific DNA binding, DSH3PX, sequence-specific transcription regulatory region DNA bindinghuman being, human., man0.00.00.00.00.00falseHomo sapiensTranscription factor p63 bookmarks genomic loci in epithelial cells and regulates a subset of target genes during epidermal differentiation through dynamic enhancers (ChIP-Seq)2022-05-122015-05-01PRJNA256315GSE5982426484246260341019606