Evidence map›Paper›PMID 40614207›Full record

ArticleScience advances2025

H3K79 methylation and H3K36 trimethylation synergistically regulate gene expression in pluripotent stem cells.

Emmalee W Cooke, Cheng Zeng, Suza Mohammad Nur, Yunbo Jia, Aileen Huang, Jiwei Chen, Peidong Gao, Fei Xavier Chen, Fulai Jin, Kaixiang Cao

Abstract read
In one paragraph

Article in Science advances, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed.

  1. Article
  2. Review
  3. Review
  4. Article
  5. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors.

Emmalee W CookeDepartment of Biochemistry, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0000-0002-7802-2707
Cheng ZengDepartment of Biochemistry, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0000-0003-0535-2251
Suza Mohammad NurDepartment of Biochemistry, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0000-0001-6446-526X
Yunbo JiaDepartment of Biochemistry, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0009-0005-7974-5615
Aileen HuangDepartment of Biochemistry, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.
Jiwei ChenFudan University Shanghai Cancer Center, Institutes of Biomedical Sciences, Shanghai, China.ORCID 0000-0003-4202-816X
Peidong GaoDepartment of Genetics and Genome Sciences, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0009-0004-1467-7570
Fei Xavier ChenFudan University Shanghai Cancer Center, Institutes of Biomedical Sciences, Shanghai, China.ORCID 0000-0002-7827-7988
Fulai JinCase Comprehensive Cancer Center, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0000-0003-0025-4337
Kaixiang CaoDepartment of Biochemistry, Case Western Reserve University, 10900 Euclid Ave., Cleveland, OH 44106, USA.ORCID 0000-0001-9953-1503

Funding

TUMOR METABOLISM PROGRAMP30CA043703 · NCI · CASE WESTERN RESERVE UNIVERSITY · PI Amar Desai · 1987 to 2026
$142.3M
Robust mapping of chromatin loops from sparse or single cell Hi-C data with DeepLoopR01HG009658 · NHGRI · CASE WESTERN RESERVE UNIVERSITY · PI Fulai Jin · 2017 to 2026
$5.1M
STAG2 mutations and 3D genome organization in glioblastoma multiformeR01CA267872 · NCI · GEORGETOWN UNIVERSITY · PI Fulai Jin, TODD A WALDMAN · 2022 to 2026
$2.7M
Mapping heritable chromatin loop variants with allele-specific Hi-C analysisR01HG012384 · NHGRI · CASE WESTERN RESERVE UNIVERSITY · PI Alan D Attie, Fulai Jin · 2023 to 2026
$2.6M
Understanding the variation of induced β-cell differentiation.R01DK131437 · NIDDK · CASE WESTERN RESERVE UNIVERSITY · PI JIN, FULAI, LI, YAN · 2022 to 2025
$2.4M
Deciphering enhancer regulation in stem cellsR35GM150668 · NIGMS · CASE WESTERN RESERVE UNIVERSITY · PI Kaixiang Cao · 2023 to 2026
$1.6M
Exploring novel regulatory mechanisms underlying enhancer activation and cell fate transitionR00HD094906 · NICHD · CASE WESTERN RESERVE UNIVERSITY · PI CAO, KAIXIANG · 2020 to 2022
$663k
NCI NIH HHS P30 CA043703NCI NIH HHS R01 CA267872NHGRI NIH HHS R01 HG009658NHGRI NIH HHS R01 HG012384NICHD NIH HHS R00 HD094906NIDDK NIH HHS R01 DK131437NIGMS NIH HHS R35 GM150668
6 · The paper itself

Abstract

Metazoan nucleosomes harboring H3K79 methylation (H3K79me) deposited by the methyltransferase DOT1L (disruptor of telomeric silencing 1-like) decorate actively transcribed genes. While DOT1L regulates transcription and the pathogenesis of leukemia and neurological disorders, the role of H3K79me remains elusive. Here, we reveal a functional synergism between H3K79me and H3K36 trimethylation (H3K36me3) in regulating gene expression and cellular differentiation. Simultaneous catalytic inactivation of DOT1L and the H3K36 methyltransferase SETD2 (SET domain containing 2) leads to hyperactive transcription and failures in neural differentiation. H3K79me/H3K36me3 loss causes increased transcription elongation, gained chromatin accessibility at a group of enhancers, and increased recruitment of TEAD4 (TEA domain transcription factor 4) and its coactivator YAP1 (Yes-associated protein 1) to these enhancers. Furthermore, YAP-TEAD inhibition restores the expression levels of genes hyperactivated by H3K79me/H3K36me3 loss. Together, we demonstrate a synergism of H3K79me and H3K36me3 in regulating transcription and cell fate transition, unveil the underlying mechanisms, and provide insight into targeting diseases driven by misregulation/mutations of DOT1L and/or SETD2.

Indexed as

Gene Expression RegulationHistonesPluripotent Stem CellsAnimalsCell DifferentiationHistone-Lysine N-MethyltransferaseHumansMethylationMiceTranscription FactorsTranscription, GeneticDOT1L protein, humanHistone-Lysine N-MethyltransferaseHistonesTranscription Factors

Identifiers

PMID40614207
PMCPMC12227068

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

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.