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Krüppel-like factor 5 rewires NANOG regulatory network to activate human morulablastocyst specific LTR7Y and promote naïve pluripotency [RNA-seq]

ABSTRACT: Transcriptome profiling for KLF4 and/or KLF5 knockout lines in human naïve embryonic stem cells Transcriptome profiling for CRISPRa-LTR7Y or KLF5 overexpression in primed human embryonic stem cells

ORGANISM(S): Homo sapiens

PROVIDER: GSE169675 | GEO | 2022/08/27

REPOSITORIES: GEO

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Krüppel-like factor 5 rewires NANOG regulatory network to activate human morulablastocyst specific LTR7Y and promote naïve pluripotency [CUT&Tag]

Project description:Genomic profiling of NANOG binding in KLF4 KLF5 double knockouts naïve human embryonic stem cells

2022-08-27 | GSE190882 | GEO

Krüppel-like factor 5 rewires NANOG regulatory network to activate human morulablastocyst specific LTR7Y and promote naïve pluripotency [ATAC-seq]

Project description:ATAC-seq profiling and comparison for chromatin accessibility in human primed embryonic stem cells (ESCs), primed ESCs overexpressing KLF5, and naïve ESCs.

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Krüppel-like factor 5 rewires NANOG regulatory network to activate human morulablastocyst specific LTR7Y and promote naïve pluripotency [ChIP-seq]

Project description:We report the genomic binding profile of KLF5, NANOG and H3K27ac in human naïve ESCs

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Krüppel-like factor 5 rewires NANOG regulatory network to activate human morulablastocyst specific LTR7Y and promote naïve pluripotency [scRNA-seq]

Project description:Single cell transcriptome profiling of human naïve embryonic stem cells.

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Krüppel-like factor 5 rewires NANOG regulatory network to activate human morulablastocyst specific LTR7Y and promote naïve pluripotency

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-08-27 | GSE169678 | GEO

Krüppel-like factor 5 regulates stemness, lineage specification, and regeneration of intestinal epithelial stem cells [RNA-seq]

Project description:The essential functions of intestinal stem cells (ISCs) are to self-renew and give rise to progenitors that subsequently differentiate to absorptive or secretory cells, thus maintaining homeostasis in the intestinal epithelium. In this study, we analyzed the transcriptomic and epigenetic changes of ISCs with Klf5 deletion to understand the role of KLF5 in ISC identity and functions.

2021-10-28 | GSE122278 | GEO

STRT RNAseq of pluripotent stem cells reprogrammed with CRISPRa

Project description:Transcriptome comparison of CRISPRa induced human pluripotent stem cell lines, control iPSC line induced with Sendai viral vectors, H9 embryonic stem cell line and human foreskin fibroblasts.

2018-06-07 | E-MTAB-6185 | biostudies-arrayexpress

DNA methylome analysis of human pluripotent stem cells reprogrammed with CRISPRa

Project description:Comparison of DNA methylation in CRISPRa induced human pluripotent stem cell lines, control iPSC line induced with Sendai viral vectors, H9 embryonic stem cell line and human foreskin fibroblasts.

2018-06-07 | E-MTAB-6194 | biostudies-arrayexpress

ChIP-chip on custom NimbleGen genomic tiling arrays

Project description:Performing Chromatin IP of Klf2, Klf4, Klf5 and p53 in mouse embryonic stem cells with NimbleGen custom genomic tiling arrays, we sought to decipher Klf2, Klf4, Klf5-regulated genes. 12 samples: Chromatin IP of Klf2, Klf4, Klf5 and p53 in mouse embryonic stem cells with NimbleGen custom genomic tiling arrays; three independent experimental replicates for each experimental condition were performed.

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Krüppel-Like Factor 5 Regulates Airway Epithelial Cell Identity and Function [CHIP-seq]

Project description:A complex network of transcription factors regulates genes involved in establishing and maintaining key biological properties of the human airway epithelium. Here we characterize the role of Krüppel-Like Factor 5 (KLF5), in controlling essential pathways of epithelial cell identity and function in the human lung. RNA-seq following siRNA-mediated depletion of KLF5 in the Calu-3 lung epithelial cell line identified significant enrichment of genes encoding chemokines and cytokines involved in the proinflammatory response, and also components of the junctional complexes mediating cell adhesion. To determine direct gene targets of KLF5, we defined the cistrome of KLF5 using ChIP-seq in both Calu-3 and 16HBE14o- lung epithelial cells lines. Occupancy site concordance analysis revealed that KLF5 co-localized with the active histone modification H3K27ac and also with binding sites for CCAAT Enhancer Binding Protein Beta (C/EBPβ). Depletion of KLF5 increased both the expression and secretion of important chemokines, a response that was enhanced following exposure to Pseudomonas aeruginosa lipopolysaccharide. Wound scratch assays in Calu-3 cells exhibited faster rates of repair after KLF5 depletion than did negative controls. Similarly, CRISPR-mediated KLF5-null 16HBE14o- cells also showed enhanced wound closure. These data reveal a pivotal role for KLF5 in coordinating epithelial functions relevant to human lung disease.

2021-10-07 | GSE164852 | GEO

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