Evidence map›Paper›PMID 26004067›Full record

ArticleCell2015

DNA Demethylation Dynamics in the Human Prenatal Germline.

Sofia Gkountela, Kelvin X Zhang, Tiasha A Shafiq, Wen-Wei Liao, Joseph Hargan-Calvopiña, Pao-Yang Chen, Amander T Clark

Open access · bronzeAbstract read
In one paragraph

Article in Cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 197 papers.

0numbers the graph read from it
0cells of the map it votes in
197citing papers in PubMed
18.8field-weighted citation impact, top 1% of its field
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

197 citing papers in PubMed, 356 citations in OpenAlex.

  1. Influence of intergenerationalFASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2017
    Trial
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  7. Review
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  9. Review
  10. A distinct subclade of AlkB family demethylases in ciliates safeguards the positional fidelity of eukaryotic NProceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  11. Mechanisms of human germ cell development.Nature reviews. Molecular cell biology · 2026
    Review
  12. Article
  13. Epigenetic alterations in Myeloid Malignancies.Advances in experimental medicine and biology · 2026
    Review
  14. Article
  15. Article
  16. Review
  17. Article
  18. Review
  19. Review
  20. Review

137 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors at 2 institutions in 2 countries.

Sofia GkountelaDepartment of Molecular Cell and Developmental Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Kelvin X ZhangDepartment of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Tiasha A ShafiqDepartment of Molecular Cell and Developmental Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Wen-Wei LiaoInstitute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan.
Joseph Hargan-CalvopiñaDepartment of Molecular Cell and Developmental Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Pao-Yang ChenInstitute of Plant and Microbial Biology, Academia Sinica, Taipei 11529, Taiwan. Electronic address: paoyang@gate.sinica.edu.tw.
Amander T ClarkDepartment of Molecular Cell and Developmental Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA; Department of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA; Eli and Edythe Broad Center of Regenerative Medicine and Stem Cell Research, University of California, Los Angeles, Los Angeles, CA 90095, USA; Jonsson Comprehensive Cancer Center, University of California, Los Angeles, Los Angeles, CA 90095, USA; Molecular Biology Institute, University of California, Los Angeles, Los Angeles, CA 90095, USA. Electronic address: clarka@ucla.edu.
University of California, Los Angeles · USInstitute of Plant and Microbial Biology, Academia Sinica · TW

Funding

Women's CancersP30CA016042 · NCI · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Samuel Wheeler French · 1985 to 2026
$134.5M
Understanding Epigenetic Remodeling in Primordial Germ CellsR01HD058047 · NICHD · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI CLARK, AMANDER · 2009 to 2023
$5.6M
Differentiating embryonic stem cells into developing germ lineR01HD079546 · NICHD · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI CLARK, AMANDER · 2015 to 2024
$3.7M
NCI NIH HHS P30 CA016042NICHD NIH HHS HD058047NICHD NIH HHS HD079546NICHD NIH HHS R01 HD058047NICHD NIH HHS R01 HD079546
6 · The paper itself

Abstract

Global DNA demethylation in humans is a fundamental process that occurs in pre-implantation embryos and reversion to naive ground state pluripotent stem cells (PSCs). However, the extent of DNA methylation reprogramming in human germline cells is unknown. Here, we performed whole-genome bisulfite sequencing (WGBS) and RNA-sequencing (RNA-seq) of human prenatal germline cells from 53 to 137 days of development. We discovered that the transcriptome and methylome of human germline is distinct from both human PSCs and the inner cell mass (ICM) of human blastocysts. Using this resource to monitor the outcome of global DNA demethylation with reversion of primed PSCs to the naive ground state, we uncovered hotspots of ultralow methylation at transposons that are protected from demethylation in the germline and ICM. Taken together, the human germline serves as a valuable in vivo tool for monitoring the epigenome of cells that have emerged from a global DNA demethylation event.

Indexed as

DNA MethylationBlastocystBlastocyst Inner Cell MassEmbryo, MammalianEmbryonic Stem CellsFemaleGene Expression ProfilingGerm CellsHumansMale

Identifiers

PMID26004067
PMCPMC4458157
OpenAlexW2098711385

What OpenQuestion holds

Textmetadata
LicenceTDM
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.