Epigenomic regulation of neural crest differentiation in human-induced pluripotent stem cells.
Overview
- Research Institute for Clinical Oncology, Saitama Cancer Center, Saitama, Japan
- Department of Graduate School of Science and Engineering, Saitama University, Saitama, Japan
- Department of Life Engineering, Faculty of Engineering, Maebashi Institute of Technology, Maebashi, Gunma, Japan
- Department of Epigenomics, Institute for Advanced Life Sciences, Hoshi University, Tokyo, Japan
- Laboratory of Integrative Metabolic Regulation, Institute for Molecular and Cellular Regulation, Gunma University, Maebashi, Gunma, Japan
Abstract
Neural crest cells (NCCs) drive vertebrate development through lineage specific differentiation into diverse tissues. Cranial (cNCCs) and trunk NCCs (tNCCs) exhibit distinct developmental trajectories that require coordinated epigenomic regulation. Aberrant NCC differentiation is associated with diseases including tumors. Epigenetic mechanisms such as histone modifications and DNA methylation are crucial for regulating NCC differentiation. Here, we used a human induced pluripotent stem cell model to compare differentiation of cNCCs and tNCCs and define lineage specific mechanisms. Integrated transcriptome and DNA methylome analyses revealed that DNA demethylation upstream of MEF2C in cNCCs and the THRA locus (a shared promoter region for THRA1 and THRA2 isoforms) in tNCCs was associated with increased expression of MEF2C and THRA2. MEF2C and THRA2 were associated with NCC markers. These findings define epigenomic features underlying lineage divergence and provide insight into NCC-related diseases such as leiomyosarcoma and neuroblastoma.
Reproduced under the paper's license (CC BY), from the paper cited above.
Code
The paper says that its authors' code is available on request: it was not published with the paper, so there is nothing to verify.
The paper's code and data availability statement is in the Data section.
Tracing map
A tracing map links a paper to the code its authors published: this paper has none (its code is available on request), so it has no map.
Data
No dataset and no data link were found in the paper.
Data and code availability
• Data: The gene expression and DNA methylation microarray data reported in this paper have been deposited in the GEO under accession numbers GSE286162 and GSE286164. • Code: This paper does not report original code. • Other items: Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.
Reproduced under the paper's license (CC BY), from the paper cited above.
Versions
The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.
Version 1, 28 September 2026: the first record
Recorded: type, language, journal, volume, issue, pages, dates, 9 authors, 3 keywords, 3 funders, 43 references, 5 RRIDs.
Cite
This paper
Mukae, K., Shindo, M., Shi, T., Onuki, R., Yamashita, S., Hattori, N., Ushijima, T., Ohira, M., & Kamijo, T. (2026). Epigenomic regulation of neural crest differentiation in human-induced pluripotent stem cells. iScience, 29(6), 115993. https://
BibTeX
@article{mukae2026epigen
author = {Mukae, Kyosuke and Shindo, Maya and Shi, Tianyuan and Onuki, Ritsuko and Yamashita, Satoshi and Hattori, Naoko and Ushijima, Toshikazu and Ohira, Miki and Kamijo, Takehiko},
title = {{Epigenomic regulation of neural crest differentiation in human-induced pluripotent stem cells}},
journal = {iScience},
year = {2026},
month = may,
volume = {29},
number = {6},
pages = {115993},
publisher = {Elsevier},
issn = {2589-0042},
doi = {10.1016/
url = {https://
pmid = {42231962},
pmcid = {PMC13224019}
}
RIS
TY - JOUR
AU - Mukae, Kyosuke
AU - Shindo, Maya
AU - Shi, Tianyuan
AU - Onuki, Ritsuko
AU - Yamashita, Satoshi
AU - Hattori, Naoko
AU - Ushijima, Toshikazu
AU - Ohira, Miki
AU - Kamijo, Takehiko
TI - Epigenomic regulation of neural crest differentiation in human-induced pluripotent stem cells
T2 - iScience
J2 - iScience
PY - 2026
DA - 2026/
VL - 29
IS - 6
SP - 115993
SN - 2589-0042
PB - Elsevier
DO - 10.1016/
UR - https://
LA - en
ER -
CSL-JSON
{
"id": "10.1016/
"type": "article-journal",
"title": "Epigenomic regulation of neural crest differentiation in human-induced pluripotent stem cells",
"container-title": "iScience",
"author": [
{
"family": "Mukae",
"given": "Kyosuke"
},
{
"family": "Shindo",
"given": "Maya"
},
{
"family": "Shi",
"given": "Tianyuan"
},
{
"family": "Onuki",
"given": "Ritsuko"
},
{
"family": "Yamashita",
"given": "Satoshi"
},
{
"family": "Hattori",
"given": "Naoko"
},
{
"family": "Ushijima",
"given": "Toshikazu"
},
{
"family": "Ohira",
"given": "Miki"
},
{
"family": "Kamijo",
"given": "Takehiko"
}
],
"container-title-short":
"volume": "29",
"issue": "6",
"page": "115993",
"DOI": "10.1016/
"PMID": "42231962",
"PMCID": "PMC13224019",
"ISSN": "2589-0042",
"publisher": "Elsevier",
"URL": "https://
"language": "en",
"issued": {
"date-parts": [
[
2026,
5,
22
]
]
}
}
Similar papers
The papers with a page that share the most with this one: the tools found in their code, their categories, datasets, cited references and authors, the rarest counting most.
- [1] doi:10.1038/s41467-026-77170-3 [code]
- DNA methylation profiling identifies long-range epigenetic silencing of clustered protocadherins as a key determinant of meningioma progression.Journal: Nature communicationsIn common: genetics / omics, cellular / molecular, 1 reference
- [2] doi:10.1016/j.isci.2026.117510
- Single-cell transcriptomic atlas of the human fetal uveal tract reveals heterogeneity in melanocyte populations.Journal: iScienceIn common: genetics / omics, 1 reference
- [3] doi:10.1371/journal.pcbi.1014424 [code]
- Combinatorial multiomic analysis from a pedigree of Sox10Dom Hirschsprung mice identifies multiple high confidence candidate modifiers of Enteric Nervous System development.Journal: PLoS computational biologyIn common: genetics / omics, 1 reference
- [4] doi:10.3389/fneur.2026.1822479 [code]
- Circulating neuron-derived cfDNA for blood-based detection of Alzheimer's and other neurodegenerative conditions.Journal: Frontiers in neurologyIn common: genetics / omics, 1 reference
- [5] doi:10.1186/s13073-026-01698-8 [code]
- From aging to Alzheimer's disease: concordant brain DNA methylation changes in late life.Journal: Genome medicineIn common: genetics / omics, 1 reference
- [6] doi:10.3389/fimmu.2026.1775662
- &
lt;i& gt;Blomia tropicalis& lt;/ i& gt; allergens induce lung DNA methylation changes in neuroimmune genes in a mouse model of airway inflammation. Journal: Frontiers in immunologyIn common: genetics / omics, cellular / molecular, 1 reference - [7] doi:10.1038/s44400-026-00074-y [code]
- Methylomic signatures of tau and amyloid-beta in transgenic mouse models of Alzheimer's disease neuropathology.Journal: NPJ dementiaIn common: genetics / omics, cellular / molecular, 1 reference
- [8] doi:10.1016/j.xgen.2026.101278 [code]
- Single-cell profiling of DNA methylation in autism spectrum disorder prefrontal cortex reveals distinct regulatory and aging signatures.Journal: Cell genomicsIn common: genetics / omics, 1 reference
- [9] doi:10.1186/s13073-026-01650-w [code]
- DNA methylation biomarkers-based pan-cancer classifier: predictive modeling for cancer classification.Journal: Genome medicineIn common: genetics / omics, 1 reference
- [10] doi:10.1038/s41467-026-76956-9 [code]
- Innervated human cardiac muscle model reveals sympathetic drivers of KCNH2-associated arrhythmias.Journal: Nature communicationsIn common: 1 reference
Contribute
The authors of this paper can claim it, correct its record and validate its tracing map, and the maintainers of its code (its owner, or a public member of its organization) correct what it says of their repository; anyone signed in can ask for its removal. Every request goes to OSCR's own machine, which answers it; your account page follows them.
Sign in with ORCID to claim this paper as one of its authors, correct its record or validate its tracing map: when the paper's metadata lists your ORCID iD, you are recognized at once. Maintainers of its code: sign in with GitHub, then claim the repository on your account page.
Claim this paper
Correct its record
Say what each link of this record is, remove the ones that are not the paper's, add the ones that are missing. The correction becomes a new version of the record, in its Versions section.
Request its removal
To ask OSCR to remove this record, the copies of its authors' scripts or its tracing map, use the removal request page: signed in, you say who you are, what to remove and why, then review and confirm the request. Published rules decide every request (how).
Discussion, reproductions, activity
Discussion: questions and error reports about this paper and its code, from signed-in readers and its authors. It opens with sign-in.
Reproductions: reports from readers who ran the authors' code: what they reproduced, with which environment, commit and data. It opens with sign-in.
Activity: what happens around this paper: new versions of its record, its map's validation, discussions and reproductions. It opens with sign-in.