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Single-cell RNA sequencing of E18.5 mouse hindstomach epithelium and bulk RNA sequencing of its derived 3D organoids across distinct YAP activity states [bulk RNA-seq]

ABSTRACT: Hippo signaling plays a crucial role in the development of multiple organs. This study consists of two transcriptomic datasets.Single-cell RNA sequencing was conducted on E18.5 mouse hindstomach epithelial cells of littermate control, YAP5SA-overexpressing and Yap knockout mice, where YAP5SA represents a constitutively active form of Yap. Bulk RNA sequencing was performed to analyze transcriptional changes in 3D organoids derived from the glandular embryonic hindstomach epithelium of control and YAP5SA-overexpressing mice. Among these, organoids were cultured under two conditions: growth medium for 5 days, or growth medium for 5 days followed by differentiation medium for an additional 7 days. Comparative gene expression profiling provides valuable insights into the role of the Hippo signaling pathway in regulating diverse biological processes during glandular stomach epithelial development.

ORGANISM(S): Mus musculus

PROVIDER: GSE318007 | GEO | 2026/05/28

REPOSITORIES: GEO

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Single-cell RNA sequencing of E18.5 mouse hindstomach epithelium and bulk RNA sequencing of its derived 3D organoids across distinct YAP activity states [scRNA-Seq]

Project description:Hippo signaling plays a crucial role in the development of multiple organs. This study consists of two transcriptomic datasets.Single-cell RNA sequencing was conducted on E18.5 mouse hindstomach epithelial cells of littermate control, YAP5SA-overexpressing and Yap knockout mice, where YAP5SA represents a constitutively active form of Yap. Bulk RNA sequencing was performed to analyze transcriptional changes in 3D organoids derived from the glandular embryonic hindstomach epithelium of control and YAP5SA-overexpressing mice. Among these, organoids were cultured under two conditions: growth medium for 5 days, or growth medium for 5 days followed by differentiation medium for an additional 7 days. Comparative gene expression profiling provides valuable insights into the role of the Hippo signaling pathway in regulating diverse biological processes during glandular stomach epithelial development.

2026-05-28 | GSE318022 | GEO

Single-cell RNA sequencing of E18.5 mouse hindstomach epithelium and bulk RNA sequencing of its derived 3D organoids across distinct YAP activity states [RNA-seq for differentiation]

2026-05-28 | GSE318012 | GEO

Single-nucleus RNA-seq analysis of YAP5SA-induced human trophoblast organoids cultured under simulated microgravity

Project description:To investigate the role of YAP activation in human trophoblast differentiation, we generated doxycycline-inducible YAP5SA (constitutively active YAP) expressing human trophoblast stem cells and analyzed them by single-nucleus RNA sequencing. Control and YAP5SA-induced trophoblast organoids were cultured under rotational conditions using simulated microgravity for 15 days. YAP activation resulted in substantial reduction of syncytiotrophoblast population and enhanced expression of cytotrophoblast stemness-associated genes, demonstrating YAP's role as a biomechanical integrator orchestrating trophoblast lineage allocation.

2026-03-09 | GSE304580 | GEO

Analysis of Liver Progenitor Cells Generated from Yap Expression [Set 1]

Project description:Hippo signaling is highly associated with activity in the stem cell compartment of many epithelial tissues. In this study, we examined if Hippo signaling inhibition (by inducing Yap expression) could convert differentiated cells into a progenitor like phenotype. Organoid cells derived from mouse livers under various conditions, wild-type, Yap ON (Plus Dox), and Yap ON then OFF (Minus Dox) was examined. Comparison between freshly isolated hepatocytes; Uninduced_YPF-#.cel against Organoids grown in wild-type conditions (WT), Yap On (in vivo) off (in vitro) - YapOrganoidDoxMinus , and Yap On continuously - YapOrganoidDoxPlus. Organoids grown in culture or YFP+ sorted liver cells after the indicated time of Yap expression were collected. These were amplified using Nugene technology and hybridized to Affymetrix MoGene1.0 st arrays.

2014-06-06 | E-GEOD-55558 | biostudies-arrayexpress

RNA-Sequencing of human dermal lymphatic endothelial cells (HDLEC) treated with siRNA targeting YAP/TAZ and YAP5SA

Project description:We analyzed genome-wide transcriptional changes induced by siYAP/TAZ and YAP5SA, using RNA-seq analysis of HDLECs in order to highlight the importance of Hippo/YAP signaling pathway in lymphatic development and maintenance. Here, we report that YAP/TAZ activity is essential for the appropriate lymphatic development and maintenance.

2019-03-03 | GSE116114 | GEO

Gene expression analysis of wild type and YAP-activated embryonic mouse stomach

Project description:Hippo-YAP signaling plays important roles in gut development and homeostasis. In this study, we use RNAseq to analyze the gene expression profiles of wild type stomach and YAP5SA-expressing stomach at E13.5. The goal of this study is to understand the transcription program regulated by YAP in the developing gut.

2019-07-30 | GSE103257 | GEO

Single cell RNA sequencing profiles of human iPSC-derived AT1-like cells in 3D cultures [SPC2B2_LDCI]

Project description:Comparison of differentiation of human iPSC derived alveolar epitheilal type 2 cells (iAT2s) into AT1-like cells (iAT1s) using a defined "LDCI" medium vs. lentiviral forced over-expression of activated nuclear YAP (YAP5SA)

2023-08-08 | GSE221343 | GEO

Nuclear YAP overexpression drives the human alveolar type 1 cell (AT1) cprogram in a cell autonomous manner in lentiviral transduced iPSC-derived alveolar type 2 cells (iAT2s)

Project description:SPC2B2 iAT2s were transduced with either control WT YAP or constitutively active nuclear YAP (YAP5SA) lentivirus in a single cell suspension and were then grown in iAT2 media (CK + DCI) in 3D matrigel for 7 days.

2023-08-08 | GSE221344 | GEO

Transcriptional targets of Hippo signaling in mammalian cells

Project description:The Hippo pathway is an emerging signaling cascade involved in the regulation of organ size control. It consists of evolutionally conserved protein kinases that are sequentially phosphorylated and activated. The active Hippo pathway subsequently phosphorylates a transcription coactivator, YAP, which precludes its nuclear localization and transcriptional activation. Identification of transcriptional targets of YAP in diverse cellular contexts is therefore critical to the understanding of the molecular mechanisms in which the Hippo pathway restricts tissue growth. We used microarrays to profile the gene expression patterns upon acute siRNA knockdown of Hippo pathway components in multiple mammalian cell lines and identified a set of genes representing immediate transcriptional targets of the Hippo/Yap signaling pathway. Three mammalian cell lines (HEK293T, HepG2, HaCaT) were transfected with scramble siRNA controls or siRNAs against NF2 and LATS2, two core components of the Hippo pathway, simultaneously. Total RNAs were harvested four days after transfection to reveal the gene expression pattern unsing microarry. YAP and TAZ siRNAs were also transfected along with NF2 and LATS2 siRNAs to identify YAP/TAZ-dependent transcriptional targets upon loss of NF2/LATS2.

2013-12-31 | E-GEOD-49384 | biostudies-arrayexpress

YAP Drives Assembly of a Spatially Colocalized Cellular Triad Required for Heart Renewal

Project description:After myocardial infarction (MI), the heart fails to renew, and the cardiac microenvironment is irreversibly disrupted. Inactivation of the Hippo signaling pathway can rebuild the post ischemic microenvironment and improve cardiac function. We investigated spatially resolved cellular relationships of neonatal and adult renewal-competent hearts to gain insight into inefficient mammalian heart renewal. Spatial transcriptomics (ST) and single-cell sequencing of adult control hearts and hearts expressing YAP5SA, an active version of the Hippo signaling pathway effector YAP, which models heart renewal, revealed a conserved, renewal-competent cardiomyocyte (CM) population in control hearts and amplified in YAP5SA hearts. This CM population was also found in the wildtype, renewal competent neonatal heart after myocardial infarction, as well as the adult human heart. Cardiac fibroblasts (CFs), expressing complement C3, colocalized with these CMs. In YAP5SA hearts and neonatal hearts post-MI, macrophages (MPs) expressing complement receptor C3ar1 also colocalized, creating a pro-renewal niche composed of the CM, CF and MP triad. Both C3 and C3ar1 loss-of-function in YAP5SA hearts similarly suppressed heart renewal, indicating that C3-expressing CFs, C3ar1-expressing MPs, and complement system signaling play a direct role in heart renewal

2024-01-11 | GSE217828 | GEO

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