Evidence map›Paper›PMID 41244987›Full record

ArticleNAR genomics and bioinformatics2025

Analysis of long-range contacts across cell types outlines a core sequence determinant of 3D genome organization.

Liezel Tamon, Zahra Fahmi, James Ashford, Rosana Collepardo-Guevara, Aleksandr B Sahakyan

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in NAR genomics and bioinformatics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Review
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

5 authors.

Liezel TamonMRC WIMM Centre for Computational Biology, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom.ORCID https://orcid.org/0000-0003-3705-6019
Zahra FahmiDepartment of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom.
James AshfordMRC WIMM Centre for Computational Biology, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom.
Rosana Collepardo-GuevaraDepartment of Chemistry, University of Cambridge, Lensfield Road, Cambridge CB2 1EW, United Kingdom.ORCID https://orcid.org/0000-0003-1781-7351
Aleksandr B SahakyanMRC WIMM Centre for Computational Biology, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom.ORCID https://orcid.org/0000-0002-8343-3594

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The sequence-driven organizing principles of the 3D genome are crucial for interpreting the core effects of genomic variation and understanding the evolution of genome organization and function. We investigated these by isolating and analysing cell-type-persistent contacts, heavily dependent on the similarly cell-type-persistent genomic sequence. We stratified long-range contacts from a diverse set of human tissues and cell lines based on contact persistence, c

Indexed as

ChromatinGenome, HumanCell LineHeterochromatinHumansChromatinHeterochromatin

Identifiers

PMID41244987
PMCPMC12614219

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Registered trials

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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.