Evidence map›Paper›PMID 39151428›Full record

ArticleStem cell reports2024

Individual variation in the emergence of anterior-to-posterior neural fates from human pluripotent stem cells.

Suel-Kee Kim, Seungmae Seo, Genevieve Stein-O'Brien, Amritha Jaishankar, Kazuya Ogawa, Nicola Micali, Victor Luria, Amir Karger, Yanhong Wang, Hyojin Kim and 14 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Stem cell reports, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.

0numbers the graph read from it
0cells of the map it votes in
12citing 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

12 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. bioRxiv : the preprint server for biology · 2025
    Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Article
  12. Article
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

24 authors.

Suel-Kee KimLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Department of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA.
Seungmae SeoLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Genevieve Stein-O'BrienLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Amritha JaishankarLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Kazuya OgawaLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Nicola MicaliLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Department of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA.
Victor LuriaDepartment of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA; Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA; Division of Genetics and Genomics, Boston Children's Hospital, Harvard Medical School, Boston, MA 02115, USA.
Amir KargerIT-Research Computing, Harvard Medical School, Boston, MA 02115, USA.
Yanhong WangLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Hyojin KimDepartment of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA.
Thomas M HydeLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Departments of Neurology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA; Departments of Psychiatry, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.
Joel E KleinmanLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Departments of Neurology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.
Ty VossDivision of Preclinical Innovation, Nation Center for Advancing Translational Science, NIH, Bethesda, MD 20892, USA.
Elana J FertigDepartments of Oncology, Biomedical Engineering, and Applied Mathematics and Statistics, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.
Joo-Heon ShinLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Roland BürliAstra-Zeneca Neuroscience iMED., 141 Portland Street, Cambridge, MA 01239, USA.
Alan J CrossAstra-Zeneca Neuroscience iMED., 141 Portland Street, Cambridge, MA 01239, USA.
Nicholas J BrandonAstra-Zeneca Neuroscience iMED., 141 Portland Street, Cambridge, MA 01239, USA.
Daniel R WeinbergerLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Departments of Neurology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA; Departments of Psychiatry, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA; Departments of Neuroscience, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA; McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA.
Joshua G ChenowethLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Daniel J HoeppnerLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA.
Nenad SestanDepartment of Neuroscience, Yale School of Medicine, New Haven, CT 06510, USA; Departments of Genetics, Psychiatry, and Comparative Medicine, Kavli Institute for Neuroscience, Program in Cellular Neuroscience, Neurodegeneration and Repair, Child Study Center, Yale School of Medicine, New Haven, CT 06510, USA. Electronic address: nenad.sestan@yale.edu.
Carlo ColantuoniLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Departments of Neurology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA; Departments of Neuroscience, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA; Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21201, USA. Electronic address: ccolantu@jhmi.edu.
Ronald D McKayLieber Institute for Brain Development, 855 North Wolfe Street, Baltimore, MD 21205, USA; Departments of Cell Biology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA. Electronic address: ronaldmckay@mac.com.

Funding

Translational Research Central ServicesP30CA006973 · NCI · JOHNS HOPKINS UNIVERSITY · PI ALAN KEITH MEEKER · 1985 to 2026
$208.6M
1/2 Cell Type and Region-Specific Regulatory Networks in Human Brain Development and DisordersU01MH116488 · NIMH · YALE UNIVERSITY · PI SESTAN, NENAD · 2018 to 2022
$6.5M
Developmental cell census of human and non-human primate brainU01MH124619 · NIMH · YALE UNIVERSITY · PI SESTAN, NENAD · 2020 to 2022
$3.3M
Comparative Genomics of Precursor Diversity and FunctionR01NS116418 · NINDS · CHILDREN'S RESEARCH INSTITUTE · PI HAYDAR, TARIK F · 2021 to 2025
$3.2M
Integrating bioinformatics into multiscale models for hepatocellular carcinomaU01CA212007 · NCI · JOHNS HOPKINS UNIVERSITY · PI EWALD, ANDREW JOSEF, FERTIG, ELANA · 2018 to 2022
$3.2M
Illuminating Neurodevelopment through Integrated Analysis and Vizualization of Multi-Omic DataR24MH114815 · NIMH · UNIVERSITY OF MARYLAND BALTIMORE · PI HERTZANO, RONNA, WHITE, OWEN R · 2018 to 2020
$2.3M
Identification of Genetic and Molecular Bases of Derived Phenotypes in Primate Brain DevelopmentR01HG010898 · NHGRI · YALE UNIVERSITY · PI SANTPERE BARO, GABRIEL, SESTAN, NENAD · 2020 to 2023
$2.2M
Dynamical Models of Cetuximab Resistance in HNSCC Based on Serial Genomics DataR01CA177669 · NCI · JOHNS HOPKINS UNIVERSITY · PI FERTIG, ELANA · 2014 to 2019
$1.8M
The gEAR portal - Advancing Data Sharing, Analysis and Discovery for Hearing and Balance ResearchR01DC019370 · NIDCD · UNIVERSITY OF MARYLAND BALTIMORE · PI MAHURKAR, ANUP · 2021 to 2022
$1.5M
Single-cell and imaging data integration software to spatially resolve the tumor microenvironmentU01CA253403 · NCI · JOHNS HOPKINS UNIVERSITY · PI FERTIG, ELANA · 2020 to 2022
$1.2M
Resolving Spatiotemporal Determinants of Cell Specification in Corticogenesis with Latent Space MethodsR00NS122085 · NINDS · JOHNS HOPKINS UNIVERSITY · PI STEIN-O'BRIEN, GENEVIEVE LAUREN · 2023 to 2025
$697k
Resolving Spatiotemporal Determinants of Cell Specification in Corticogenesis with Latent Space MethodsK99NS122085 · NINDS · JOHNS HOPKINS UNIVERSITY · PI STEIN-O'BRIEN, GENEVIEVE LAUREN · 2021 to 2022
$221k
NCI NIH HHS P30 CA006973NCI NIH HHS R01 CA177669NCI NIH HHS U01 CA212007NCI NIH HHS U01 CA253403NHGRI NIH HHS R01 HG010898NIDCD NIH HHS R01 DC019370NIMH NIH HHS R24 MH114815NIMH NIH HHS U01 MH116488NIMH NIH HHS U01 MH124619NINDS NIH HHS K99 NS122085NINDS NIH HHS R00 NS122085NINDS NIH HHS R01 NS116418
6 · The paper itself

Abstract

Variability between human pluripotent stem cell (hPSC) lines remains a challenge and opportunity in biomedicine. In this study, hPSC lines from multiple donors were differentiated toward neuroectoderm and mesendoderm lineages. We revealed dynamic transcriptomic patterns that delineate the emergence of these lineages, which were conserved across lines, along with individual line-specific transcriptional signatures that were invariant throughout differentiation. These transcriptomic signatures predicted an antagonism between SOX21-driven forebrain fates and retinoic acid-induced hindbrain fates. Replicate lines and paired adult tissue demonstrated the stability of these line-specific transcriptomic traits. We show that this transcriptomic variation in lineage bias had both genetic and epigenetic origins, aligned with the anterior-to-posterior structure of early mammalian development, and was present across a large collection of hPSC lines. These findings contribute to developing systematic analyses of PSCs to define the origin and consequences of variation in the early events orchestrating individual human development.

Indexed as

Cell DifferentiationCell LineagePluripotent Stem CellsTranscriptomeCell LineEpigenesis, GeneticGene Expression Regulation, DevelopmentalHumansTretinoinTretinoinacid signalinganterior or posterior neural fatescell line variationearly embryohuman populationpluripotent stem cellsretinoicSOX21

Identifiers

PMID39151428
PMCPMC11411333

What Socratic holds

Textmetadata
LicenceCC BY
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 Socratic graph.