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RNA-Seq analysis of 2C genes following Nelfa overexpression in H2AX WT or H2AX KO mESCs

ABSTRACT: Zygotic genome activation (ZGA) in early embryos is driven by extensive chromatin remodeling initiated by maternal factors, enabling the activation of cleavage-stage gene programs that underpin totipotency. In mouse embryonic stem cells (mESCs), a similar 2-cell-like (2C) state can be induced experimentally through the expression of specific maternal regulators such as NELFA. The RNA-seq dataset here was used to estimate the impact of NELFA overexpression on of 2C characteristic genes in context of H2AX KO in mESCs.

ORGANISM(S): Mus musculus

PROVIDER: GSE311870 | GEO | 2026/07/27

REPOSITORIES: GEO

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RNA-Seq analysis of 2C genes following MERVL-NELFA overexpression in wild type mESCs

Project description:Zygotic genome activation (ZGA) in early embryos is driven by extensive chromatin remodeling initiated by maternal factors, enabling the activation of cleavage-stage gene programs that underpin totipotency. In mouse embryonic stem cells (mESCs), a similar 2-cell-like (2C) state can be induced experimentally through the expression of specific maternal regulators such as NELFA. The RNA-seq dataset here was used to estimate the impact of NELFA-MERVL overexpression on of 2C characteristic genes in mESCs.

2026-07-27 | GSE311871 | GEO

RNA-Seq analysis of 2C genes in mESC lines with overexpression of full length NELFA, MERVL-NELFA and IDR-deletion mutant (NELFA-IDR-Del).

Project description:Zygotic genome activation (ZGA) in early embryos is driven by extensive chromatin remodeling initiated by maternal factors, enabling the activation of cleavage-stage gene programs that underpin totipotency. In mouse embryonic stem cells (mESCs), a similar 2-cell-like (2C) state can be induced experimentally through the expression of specific maternal regulators such as NELFA. The RNA-seq dataset here was used to estimate the impact of full length NELFA, MERVL-NELFA and IDR-deletion mutant (NELFA-IDR-Del) on expression of 2C genes in mESCs.

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Project description:Mouse embryonic stem cells (mESCs) are not homogenous; a rare subpopulation of cells can sporadically transit into a early-embryonic-like state and exhibits a gene expression program resembling that of the 2-cell (2C) embryo. We identified the maternal factor NELFA as a novel driver of the 2C-like gene expression through multiple mechanisms. We further demonstrate that the entry of mESCs into the 2C-like state is accompanied by epigenetic and metabolic reprogramming, and that perturbation of the metabolic state via a small molecule can promote this cell fate reversion in a NELFA-dependent manner, obviating the need for any genetic manipulation. Our findings thus place NELFA as one of the earliest regulators of 2C gene expression, extending contemporary knowledge of how totipotency may be regulated.

2019-11-18 | GSE113671 | GEO

RNA-Seq analysis of 2C genes following Nelfa overexpression in H2AX WT or H2AX KO mESCs

Project description:RNA-Seq analysis of 2C genes following Nelfa overexpression in H2AX WT or H2AX KO mESCs

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RNA-Seq analysis of 2C genes in reporter mESC lines with or without pladienolide B treatment.

Project description:Zygotic genome activation (ZGA) in early embryos is driven by extensive chromatin remodeling initiated by maternal factors, enabling the activation of cleavage-stage gene programs that underpin totipotency. In mouse embryonic stem cells (mESCs), a similar 2-cell-like (2C) state can be induced experimentally through the expression of specific maternal regulators such as NELFA. The RNA-seq dataset here was used to estimate the impact of pladienolide B treatment in 3 different reporter mESC lines: 1 with NELFA reporter, 1 with NELFA-MERVL deletion and 1 with total NELFA KO.

2026-07-27 | GSE311873 | GEO

RNA-Seq analysis of 2C genes following MERVL-NELFA overexpression in wild type mESCs

Project description:RNA-Seq analysis of 2C genes following MERVL-NELFA overexpression in wild type mESCs

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NELFA is a novel regulator of the 2C-like state

Project description:NELFA is a novel regulator of the 2C-like state

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RNA-Seq analysis of 2C genes in mESC lines with overexpression of full length NELFA, MERVL-NELFA and IDR-deletion mutant (NELFA-IDR-Del).

Project description:RNA-Seq analysis of 2C genes in mESC lines with overexpression of full length NELFA, MERVL-NELFA and IDR-deletion mutant (NELFA-IDR-Del).

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2025-05-24 | GSE278296 | GEO

Four Hi-C datasets from mESCs and 2C-like cells generated by knocking down the histone chaperone CAF-1 in mESCs

Project description:In this experiment, we've examined chromatin conformation of mESCs and 2C-like cells generated from a CAF-1 knockdown. The method to generate the knockdown was described in (). We performed a modified in situ Hi-C protocol from (Rao et al., 2014) and that can be found in detail at (Díaz et al., 2017, under revision). Samples were digested with MboI restriction enzyme having as starting material 100k cells with two biological replicates per sampling point. The aim of the experiment was to analyze the potential chromatin conformational changes that accompany the mESC to 2C-like transition.

2023-11-16 | E-MTAB-6330 | biostudies-arrayexpress

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