Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single Cell RNAseq REX-1 RFP mESC 2019

ABSTRACT: This experiment examines how increasing stress (sorbitol) can override normal stemness (NS) conditions, which LIF maintains, causing lineage imbalance and otherwise affecting cells in the early embryo. It also compares NS to normal differentiation (ND) (without LIF). D3 are from 8 blastocysts of 129/Sv+/+ strain mice germ line competent 1. No sex is given as these may actually be a product of different sexes of the 8 blastocysts. The D3 cells were obtained for ATCC (American Type Culture Collection). 1. Doetschman TC, Eistetter H, Katz M, Schmidt W, Kemler R. The in vitro development of blastocyst-derived embryonic stem cell lines: formation of visceral yolk sac, blood islands and myocardium. J Embryol Exp Morphol 1985;87:27-45. Rex1 promoter- Red fluorescence protein (RFP) transgenic viable reporter ESC were created and validated previously2. 2. Li Q, Gomez-Lopez N, Drewlo S, et al. Development and Validation of a Rex1-RFP Potency Activity Reporter Assay That Quantifies Stress-Forced Potency Loss in Mouse Embryonic Stem Cells. Stem Cells Dev 2016;25:320-8.

ORGANISM(S): Mus musculus

PROVIDER: GSE245532 | GEO | 2024/10/16

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Bulk RNAseq REX-1 RFP mESC 2019

Project description:This experiment examines how increasing stress (sorbitol) can override normal stemness (NS) conditions, which LIF maintains, causing lineage imbalance and otherwise affecting cells in the early embryo. It also compares NS to normal differentiation (ND) (without LIF). D3 are from 8 blastocysts of 129/Sv+/+ strain mice germ line competent 1. No sex is given as these may actually be a product of different sexes of the 8 blastocysts. The D3 cells were obtained for ATCC (American Type Culture Collection). 1. Doetschman TC, Eistetter H, Katz M, Schmidt W, Kemler R. The in vitro development of blastocyst-derived embryonic stem cell lines: formation of visceral yolk sac, blood islands and myocardium. J Embryol Exp Morphol 1985;87:27-45. Rex1 promoter- Red fluorescence protein (RFP) transgenic viable reporter ESC were created and validated previously2. 2. Li Q, Gomez-Lopez N, Drewlo S, et al. Development and Validation of a Rex1-RFP Potency Activity Reporter Assay That Quantifies Stress-Forced Potency Loss in Mouse Embryonic Stem Cells. Stem Cells Dev 2016;25:320-8.

2024-07-19 | GSE237796 | GEO

Runx1 marks a luminal castration resistant lineage established at the onset of prostate development

Project description:We performed scRNA-seq to characterize the heterogeneity of RUNX1+ and RUNX1- fractions of the adult mouse prostate. We dissected individual lobes of intact/hormone naive and regressed/castrated mouse prostates, isolated from P2-Runx1:RFP reporter mice, expressing RFP as a surrogate of Runx1 expression. In order to compensate for the relative sparsity of RFP+ and RFP- cells respectively pre- and post-castration, we artificially enriched for under-represented populations by FACS (EPCAM+) prior cell encapsulation. To study the specification of embryonic prostate lineages, we performed scRNA-seq on the EPCAM+ fraction of UGS explant cultures collected at successive time points: E15.5 (D0), day 1 (D1), day 3 (D3), and day 6 (D6).

2020-10-07 | GSE151944 | GEO

Bulk RNAseq NIEHS P30 CURES Pilot Environmental hormonal and mutagenic stress in fluorescent-ubiquitinated cell cycle indicator (FUCCI) mESC 2021

Project description:This experiment examines how toxicants can override normal stemness (NS) conditions, which LIF maintains, causing lineage imbalance and otherwise affecting cells in the early embryo. It also compares NS to normal differentiation (ND) (without LIF/ LIF-). Sorbitol is a positive control for stress overriding LIF+. Retinoic acid (RA) modified LIF- is a positive control for 1st lineage differentiation. But RA also activates Hox gene in anterior posterior patterning at gastrulation. The third control is NS itself, and all stimuli are compared to NS. Other toxicants are Benzo(a)pyrene (BP) - a mutagen, Cortisol - a stress hormone, and two endocrine disruptors Diethyl phthalate (DEP), and Perfluorooctanoic acid (PFOA).

2023-12-20 | GSE196827 | GEO

Differential methylation between mouse embyronic stem cell states

Project description:We generated RRBS data between Rex1-high and Rex1-low cells to identify differentially methylated promoters. We observe bimodal methylation levels in both subpopulations, and that Rex1-low cells accumulate increased levels of methylation, frequently as a function of local CpG density We sorted Rex1 high and low cells using a GFP-knockin reporter cell line (kindly provided by Austin Smith), and performed RRBS on the subpopulations

2014-07-21 | E-GEOD-58396 | biostudies-arrayexpress

Mus musculus

Project description:Comparison of Hob6-RFP positive and negative Flk-1+ cells (RFP reporter)

| PRJNA193192 | ENA

Transition of embryonic stem cells from ground state pluripotency (RNA-seq)

Project description:Mouse embryonic stem cells were maintained in minimal and chemically-defined culture conditions supporting naive pluripotency. Inhibitors of the Gsk3 (CHIR99021) and Mek/Erk (PD0325901) pathways were withdrawn, cultures maintained for 24 hours, and subsequently sorted by flow cytometry based on fluorescence of a short-half-life Rex1(Zfp42)::GFP reporter into two populations: Rex1-high cells, functionally capable of reversion to naive pluripotency, and Rex1-low cells that have exited the naive state.

2017-02-22 | E-MTAB-5305 | biostudies-arrayexpress

Transition of embryonic stem cells from ground state pluripotency

2017-02-22 | E-MTAB-5304 | biostudies-arrayexpress

Transcriptome of ESCs, EpiSCs and reverted ES by MM401 (Mll1 inhibitor) #2

Project description:This study describes the transcriptome profiling of: 1) mouse ES cells in LIF/KSR medium; 2)EpiSCs in bFGF/serum-free (KSR) medium; 3) EpiSCs treated with MM401/LIF KSR at D3 and D6 (P2); 4) rES reverted form EpiSC by MM401/LIF KSR treatment at P6, P30 with or without MM401 .

2016-05-21 | GSE73993 | GEO

Tracking the embryonic stem cell transition from ground state pluripotency

Project description:Mouse embryonic stem (ES) cells are locked into self-renewal by shielding from inductive cues. Release from this ground state in minimal conditions offers a system for delineating developmental progression from naive pluripotency. Here we examined the initial transition process. The ES cell population behaves asynchronously. We therefore exploited a short-half-life Rex1::GFP reporter to isolate cells either side of exit from naive status. Differentiation of Rex1-GFPd2 ES cells was initiated by withdrawing 2i (Kalkan et al., 2016). Undifferentiated 2i-cells and post-2i withdrawal differentiating populations (16h, 25h-Rex1-High, 25h-Rex1-Low) were subjected to proteomic analysis by Mass Spectrometry.

2017-02-22 | PXD005581 | Pride

Global gene expression analysis in murine iPS cells derived with mouse and human Nanog orthologs

Project description:Nanog null neural stem (NS) cells were reprogrammed to naive pluripotency in 2i/LIF conditions with mouse (m) Nanog and human (h) Nanog. Global gene expression in resulting iPS cells was compared to embryonic stem (ES) cells and nanog null NS cells.

2011-10-24 | GSE32464 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data