Evidence map›Paper›PMID 40702188›Full record

ArticleNature2025

Precisely defining disease variant effects in CRISPR-edited single cells.

Yuriy Baglaenko, Zepeng Mu, Michelle Curtis, Hafsa M Mire, Vidyashree Jayanthi, Majd Al Suqri, Cassidy Liu, Ryan Agnew, Aparna Nathan, Annelise Yoo Mah-Som and 3 more

Abstract read
In one paragraph

Article in Nature, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing 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

9 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. Article
  5. Article
  6. Review
  7. Review
  8. Deriving genetic codes for molecular phenotypes from first principles.bioRxiv : the preprint server for biology · 2026
    Article
  9. 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

13 authors.

Yuriy Baglaenko *Center for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA. yuriy.baglaenko@cchmc.org.ORCID 0000-0002-9020-6824
Zepeng Mu *Center for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.ORCID 0000-0002-7717-3247
Michelle CurtisCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.ORCID 0000-0002-6843-4839
Hafsa M MireCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.
Vidyashree JayanthiCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.
Majd Al SuqriCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.ORCID 0009-0006-8818-1329
Cassidy LiuCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.
Ryan AgnewCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.
Aparna NathanCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.ORCID 0000-0002-5975-2851
Annelise Yoo Mah-SomCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA.
David R LiuMerkin Institute of Transformative Technologies in Healthcare, Broad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID 0000-0002-9943-7557
Gregory A NewbyMerkin Institute of Transformative Technologies in Healthcare, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Soumya RaychaudhuriCenter for Data Sciences, Brigham and Women's Hospital, Boston, MA, USA. soumya@broadinstitute.org.ORCID 0000-0002-1901-8265

Funding

Role of fibroblastic stromal cells and notch signaling in tissue inflammation in RA and SLEP01AI148102 · NIAID · BRIGHAM AND WOMEN'S HOSPITAL · PI Betty Diamond · 2021 to 2026
$17.3M
Discovery and Functional Impact of Common and Rare Variants in RAR01AR063759 · NIAMS · BRIGHAM AND WOMEN'S HOSPITAL · PI Soumya Raychaudhuri · 2013 to 2026
$5.4M
Predicting the impact of genetic variants, genes and pathways on human DiseaseU01HG012009 · NHGRI · BRIGHAM AND WOMEN'S HOSPITAL · PI ALKES L PRICE, Soumya Raychaudhuri · 2021 to 2026
$4.2M
Integrative modelling of single-cell data to elucidate the genetic architecture of complex diseaseR01HG013083 · NHGRI · DANA-FARBER CANCER INST · PI ALEXANDER GUSEV, ALKES L PRICE · 2024 to 2026
$1.5M
NHGRI NIH HHS R01 HG013083NHGRI NIH HHS U01 HG012009NIAID NIH HHS P01 AI148102NIAMS NIH HHS R01 AR063759
6 · The paper itself

Abstract

Genetic studies have identified thousands of individual disease-associated non-coding alleles, but the identification of the causal alleles and their functions remains a critical bottleneck

Indexed as

CRISPR-Cas SystemsDiseaseGene EditingSingle-Cell AnalysisAllelesHumansPolymorphism, Single NucleotideT-LymphocytesTranscriptome

Identifiers

PMID40702188
PMCPMC12488502

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.