Evidence map›Paper›PMID 40533554›Full record

ArticleNature2025

In vivo mapping of mutagenesis sensitivity of human enhancers.

Michael Kosicki, Boyang Zhang, Vivian Hecht, Anusri Pampari, Laura E Cook, Neil Slaven, Jennifer A Akiyama, Ingrid Plajzer-Frick, Catherine S Novak, Momoe Kato and 10 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 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Article
  3. Review
  4. Enhancer Dynamics for Gene Regulation in the Cardiovascular System.Arteriosclerosis, thrombosis, and vascular biology · 2026
    Review
  5. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

20 authors.

Michael KosickiEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0001-7173-8852
Boyang ZhangDepartment of Genetics, Stanford University, Stanford, CA, USA.
Vivian HechtDepartment of Genetics, Stanford University, Stanford, CA, USA.
Anusri PampariDepartment of Computer Science, Stanford University, Stanford, CA, USA.
Laura E CookEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-4459-2592
Neil SlavenEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0003-4794-9806
Jennifer A AkiyamaEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-0667-9355
Ingrid Plajzer-FrickEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Catherine S NovakEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Momoe KatoEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Stella TranEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Riana D HunterEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Kianna von MaydellEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Sarah BartonEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Erik BeckmanEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Yiwen ZhuEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-2282-1913
Diane E DickelEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Anshul KundajeDepartment of Genetics, Stanford University, Stanford, CA, USA.ORCID 0000-0003-3084-2287
Axel ViselEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. AVisel@lbl.gov.ORCID 0000-0002-4130-7784
Len A PennacchioEnvironmental Genomics & System Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA. LAPennacchio@lbl.gov.ORCID 0000-0002-8748-3732

Funding

Generation of an In Vivo Human Genome Transcriptional Enhancer DatasetR01HG003988 · NHGRI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI Len Alexander Pennacchio · 2006 to 2026
$24.1M
GENCODE: comprehensive reference genome annotation for human and mouseU24HG007234 · NHGRI · EUROPEAN MOLECULAR BIOLOGY LABORATORY · PI Fergal James Martin · 2021 to 2026
$16.1M
Predicting context-specific molecular and phenotypic effects of genetic variation through the lens of the cis-regulatory codeU01HG012069 · NHGRI · STANFORD UNIVERSITY · PI Anshul Kundaje · 2021 to 2026
$3.9M
Decoding the regulatory architecture of the human genome across cell types, individuals and diseaseU01HG009431 · NHGRI · STANFORD UNIVERSITY · PI PRITCHARD, JONATHAN K · 2017 to 2021
$3.5M
NHGRI NIH HHS R01 HG003988NHGRI NIH HHS U01 HG009431NHGRI NIH HHS U01 HG012069NHGRI NIH HHS U24 HG007234
6 · The paper itself

Abstract

Distant-acting enhancers are central to human development

Indexed as

Enhancer Elements, GeneticMutagenesisAllelesAnimalsBase PairingBrainFemaleHumansMachine LearningMaleMiceMice, TransgenicMutationNucleotide Motifs

Identifiers

PMID40533554
PMCPMC13005948

What OpenQuestion holds

Textmetadata
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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.