Evidence map›Paper›PMID 40918604›Full record

ArticleJBMR plus2025

Genome topology analysis and transcriptomics of human osteoclasts reveals enhancer-promoter interactions at loci for bone traits and diseases.

Scott G Wilson, Purdey J Campbell, Dhanya Sooraj, Kassandra Leatherbarrow, Benjamin H Mullin, Suzanne J Brown, Kun Zhu, Shelby Mullin, Bryan K Ward, Jordan Zhang and 6 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in JBMR plus, 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. 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

16 authors.

Scott G WilsonDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.ORCID https://orcid.org/0000-0002-0357-1373
Purdey J CampbellDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.
Dhanya SoorajAustralian Genome Research Facility, Victorian Comprehensive Cancer Centre, Melbourne, Victoria, 3000, Australia.
Kassandra LeatherbarrowSchool of Biomedical Sciences, University of Western Australia, Nedlands, WA, 6009, Australia.
Benjamin H MullinDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.
Suzanne J BrownDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.
Kun ZhuDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.ORCID https://orcid.org/0000-0002-8723-7574
Shelby MullinDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.
Bryan K WardDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.ORCID https://orcid.org/0000-0001-9251-2107
Jordan ZhangDovetail Genomics, Scotts Valley, CA, 95066, United States.
Jonathon TorchiaDovetail Genomics, Scotts Valley, CA, 95066, United States.
Frank DudbridgeDepartment of Population Health Sciences, University of Leicester, Leicester, LE1 7RH, United Kingdom.ORCID https://orcid.org/0000-0002-8817-8908
Jiake XuSchool of Biomedical Sciences, University of Western Australia, Nedlands, WA, 6009, Australia.ORCID https://orcid.org/0000-0003-2021-8309
Nathan J PavlosSchool of Biomedical Sciences, University of Western Australia, Nedlands, WA, 6009, Australia.ORCID https://orcid.org/0000-0001-7003-188X
David ChandlerAustralian Genome Research Facility, Victorian Comprehensive Cancer Centre, Melbourne, Victoria, 3000, Australia.
John P WalshDepartment of Endocrinology and Diabetes, Sir Charles Gairdner Hospital, Nedlands, WA, 6009, Australia.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Genome-wide association studies (GWAS) relevant to osteoporosis have identified hundreds of loci; however, understanding how these variants influence the phenotype is complicated because most reside in non-coding DNA sequence that serves as transcriptional enhancers and repressors. To advance knowledge on these regulatory elements in osteoclasts (OCs), we performed Micro-C analysis, which informs on the genome topology of these cells and integrated the results with transcriptome and GWAS data to further define loci linked to BMD. Using blood cells isolated from 4 healthy participants aged 31-61 yr, we cultured OC in vitro and generated a Micro-C chromatin conformation capture dataset. We characterized chromatin loops (CLs) in OC from among more than 69 million chromatin interactions identified in the genome. Of the CL identified in OC, >16 000 were unique compared to precursor cells. When sentinel single nucleotide polymorphisms from osteoporosis and bone-related GWAS and those in linkage disequilibrium at

Indexed as

BMDchromatin conformationchromatin loopgenome topologyMicro-Costeoclastosteoporosis

Identifiers

PMID40918604
PMCPMC12409414

What OpenQuestion holds

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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.