ArticleCell reports2019
Quantitative Multiplexed ChIP Reveals Global Alterations that Shape Promoter Bivalency in Ground State Embryonic Stem Cells.
Article in Cell reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
21 citing papers in PubMed, 33 citations in OpenAlex.
- mChIP-seq for Multiplex and Multifactorial Epigenomic Profiling Uncovers Cancer-specific Histone Features in Cellular and Circulating Nucleosomes.bioRxiv : the preprint server for biology · 2026Article
- Crosstalk between EZH2 and DNA methylation mediates neuroendocrine prostate cancer lineage plasticity.Nature communications · 2026Article
- Multi-layered dosage compensation of the avian Z chromosome by increased transcriptional burst frequency and elevated translational rates.Nature communications · 2025Article
- Remodelling bivalent chromatin is essential for mouse peri-implantation embryogenesis.Nature cell biology · 2025Article
- The exit from naive pluripotency: a platform for the study of enhancer mechanistics.Biochemical Society transactions · 2025Review
- The rebirth of repressive chromatin during early vertebrate development.Annals of the New York Academy of Sciences · 2025Review
- The length of the G1 phase is an essential determinant of H3K27me3 landscapes across diverse cell types.PLoS biology · 2025Article
- Multiplexed chromatin immunoprecipitation sequencing for quantitative study of histone modifications and chromatin factors.Nature protocols · 2025Review
- Crosstalk between Signaling Pathways and Energy Metabolism in Pluripotency.International journal of stem cells · 2025Review
- Article
- Bivalent chromatin: a developmental balancing act tipped in cancer.Biochemical Society transactions · 2024Review
- Article
- Dynamic antagonism between key repressive pathways maintains the placental epigenome.Nature cell biology · 2023Article
- Dynamical modeling of the H3K27 epigenetic landscape in mouse embryonic stem cells.PLoS computational biology · 2022Article
- TET1 regulates gene expression and repression of endogenous retroviruses independent of DNA demethylation.Nucleic acids research · 2022Article
- Polycomb repressive complex 2 shields naïve human pluripotent cells from trophectoderm differentiation.Nature cell biology · 2022Article
- Distinct transcription kinetics of pluripotent cell states.Molecular systems biology · 2022Article
- mSWI/SNF promotes Polycomb repression both directly and through genome-wide redistribution.Nature structural & molecular biology · 2021Article
- The deubiquitinase Usp9x regulates PRC2-mediated chromatin reprogramming during mouse development.Nature communications · 2021Article
- DNMTs Play an Important Role in Maintaining the Pluripotency of Leukemia Inhibitory Factor-Dependent Embryonic Stem Cells.Stem cell reports · 2021Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To understand the epigenomic foundation of naive pluripotency, we implement a quantitative multiplexed chromatin immunoprecipitation sequencing (ChIP-seq) method comparing mouse embryonic stem cells (ESCs) grown in 2i versus 2i/serum and serum conditions. MINUTE-ChIP has a large linear dynamic range for accurately quantifying relative differences in genome-wide histone modification patterns across multiple pooled samples. We find compelling evidence for a broad H3 lysine 27 trimethylation (H3K27me3) hypermethylation of the genome, while bivalent promoters stably retain high H3K27me3 levels in 2i. We show that DNA hypomethylation, as observed in 2i, is a contributor to genome-wide gain of H3K27me3, while active demethylation by JMJD3/UTX counteracts further accumulation of H3K27me3. In parallel, we find hypomethylation of H3 lysine 4 trimethylation (H3K4me3), particularly at bivalent promoters, to be a characteristic of the 2i ground state. Serum stimulates H3K4me3 independent of GSK-3b and ERK signaling, suggesting that low H3K4me3 and high H3K27me3 levels at bivalent promoters are a product of two independent mechanisms that safeguard naive pluripotency.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.