Evidence map›Paper›PMID 41202819›Full record

ReviewStem cell reports2025

A novel paradigm for single-cell annotation in stem cell research.

Trevor Atkeson, Sean B Wilson, Elias R Ruiz-Morales, Melissa H Little, Roser Vento-Tormo, Drew Neavin, Joseph E Powell

Abstract readReview
In one paragraph

Review in Stem cell reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

Trevor AtkesonTranslational Genomics, Garvan Institute of Medical Research, Darlinghurst, Sydney, NSW 2021, Australia. Electronic address: t.atkeson@garvan.org.au.
Sean B WilsonNovo Nordisk Foundation Center for Stem Cell Medicine, University of Copenhagen, Copenhagen 2100, Denmark.
Elias R Ruiz-MoralesWellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK.
Melissa H LittleNovo Nordisk Foundation Center for Stem Cell Medicine, University of Copenhagen, Copenhagen 2100, Denmark; Novo Nordisk Foundation Center for Stem Cell Medicine, Murdoch Children's Research Institute, Parkville, VIC 3052, Australia.
Roser Vento-TormoWellcome Sanger Institute, Wellcome Genome Campus, Cambridge, UK; Cambridge Stem Cell Institute, University of Cambridge, Cambridge, UK.
Drew NeavinTranslational Genomics, Garvan Institute of Medical Research, Darlinghurst, Sydney, NSW 2021, Australia.
Joseph E PowellTranslational Genomics, Garvan Institute of Medical Research, Darlinghurst, Sydney, NSW 2021, Australia; UNSW Cellular Genomics Futures Institute, University of New South Wales, Kensington, Sydney, NSW 2052, Australia.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Stem cell-derived models are a powerful tool for studying biology and are increasingly paving the way for cell-based therapies. However, understanding precisely which cell types are present and how closely they recapitulate in vivo cells remains challenging. Single-cell genomics, coupled with annotation methods, provides a framework for evaluating the congruence of stem cells with in vivo biology. Here, we explore approaches to cell annotation and discuss the challenges of implementing these methods in stem cell-derived models. We provide recommendations for the application of these methods, as well as our vision for the future of stem cell annotation using cell manifolds.

Indexed as

Molecular Sequence AnnotationSingle-Cell AnalysisStem Cell ResearchStem CellsAnimalsGenomicsHumansAIcell annotationcellular genomicshPSCssingle cell

Identifiers

PMID41202819
PMCPMC12744853

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.