Evidence map›Paper›PMID 39461959›Full record

ArticleNature communications2024

Genomic landscape of adult testicular germ cell tumours in the 100,000 Genomes Project.

Máire Ní Leathlobhair, Anna Frangou, Ben Kinnersley, Alex J Cornish, Daniel Chubb, Eszter Lakatos, Prabhu Arumugam, Andreas J Gruber, Philip Law, Avraam Tapinos and 19 more

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing 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

10 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Article
  8. A Thiopurine-like Mutagenic Process Defines TGCT Subtypes.bioRxiv : the preprint server for biology · 2025
    Article
  9. Article
  10. 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

29 authors.

Máire Ní LeathlobhairBig Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford, UK. mnileathlobhair@gmail.com.ORCID 0000-0002-8523-4935
Anna Frangou *Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany.ORCID 0000-0001-6990-2756
Ben Kinnersley *Division of Genetics and Epidemiology, The Institute of Cancer Research, London, UK.ORCID 0000-0003-1783-6296
Alex J CornishDivision of Genetics and Epidemiology, The Institute of Cancer Research, London, UK.ORCID 0000-0002-3966-3501
Daniel ChubbDivision of Genetics and Epidemiology, The Institute of Cancer Research, London, UK.
Eszter LakatosDepartment of Mathematical Sciences, Chalmers University of Technology and University of Gothenburg, Gothenburg, Sweden.ORCID 0000-0002-7221-6850
Prabhu ArumugamGenomics England, London, UK.
Andreas J GruberDepartment of Biology, University of Konstanz, Universitaetsstrasse 10, D-78464, Konstanz, Germany.ORCID 0000-0001-7664-4257
Philip LawDivision of Genetics and Epidemiology, The Institute of Cancer Research, London, UK.ORCID 0000-0001-9663-4611
Avraam TapinosManchester Cancer Research Centre, The University of Manchester, Manchester, UK.
G Maria JakobsdottirDivision of Cancer Sciences, University of Manchester, Manchester Academic Health Science Centre, Manchester, UK.ORCID 0000-0001-8225-6541
Iliana PenevaBig Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford, UK.
Atef SahliBig Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford, UK.
Evie M SmythDepartment of Microbiology, Moyne Institute of Preventive Medicine, School of Genetics and Microbiology, Trinity College Dublin, Dublin, Ireland.ORCID 0009-0004-8653-3285
Richard Y BallNorfolk and Norwich University Hospitals NHS Foundation Trust, Norwich, UK.ORCID 0000-0003-0579-3911
Rushan SylvaGuy's and St Thomas' NHS Foundation Trust, London, UK.
Ksenija BenesDepartment of Pathology, The Royal Wolverhampton NHS Trust, Wolverhampton, UK.
Dan StarkLeeds Institute of Medical Research at St James's, University of Leeds, Leeds, UK.
Robin J YoungWeston Park Cancer Centre, Sheffield Teaching Hospitals NHS Foundation Trust, Sheffield, UK.
Alexander T J LeeChristie Hospital, The Christie NHS Foundation Trust, Manchester Academic Health Science Centre, Manchester, UK.
Vincent WolversonGenomics England, London, UK.
Richard S HoulstonDivision of Genetics and Epidemiology, The Institute of Cancer Research, London, UK.ORCID 0000-0002-5268-0242
Alona SosinskyGenomics England, London, UK.ORCID 0000-0001-9022-7409
Andrew ProtheroeDepartment of Oncology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK.ORCID 0000-0001-9413-0575
Matthew J MurrayDepartment of Paediatric Haematology and Oncology, Cambridge University Hospitals NHS Foundation Trust, Cambridge, UK. mjm16@cam.ac.uk.ORCID 0000-0002-4480-1147
David C WedgeBig Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford, UK. david.wedge@manchester.ac.uk.ORCID 0000-0002-7572-3196
Clare VerrillNIHR Oxford Biomedical Research Centre, Oxford, UK. clare.verrill@ouh.nhs.uk.ORCID 0000-0002-4905-8233
Testicular Cancer Genomics England Clinical Interpretation Partnership Consortium
Genomics England Research Consortium

Funding

Wellcome Trust
6 · The paper itself

Abstract

Testicular germ cell tumours (TGCT), which comprise seminoma and non-seminoma subtypes, are the most common cancers in young men. In this study, we present a comprehensive whole genome sequencing analysis of adult TGCTs. Leveraging samples from participants recruited via the UK National Health Service and data from the Genomics England 100,000 Genomes Project, our results provide an extended description of genomic elements underlying TGCT pathogenesis. This catalogue offers a comprehensive, high-resolution map of copy number alterations, structural variation, and key global genome features, including mutational signatures and analysis of extrachromosomal DNA amplification. This study establishes correlations between genomic alterations and histological diversification, revealing divergent evolutionary trajectories among TGCT subtypes. By reconstructing the chronological order of driver events, we identify a subgroup of adult TGCTs undergoing relatively late whole genome duplication. Additionally, we present evidence that human leukocyte antigen loss is a more prevalent mechanism of immune disruption in seminomas. Collectively, our findings provide valuable insights into the developmental and immune modulatory processes implicated in TGCT pathogenesis and progression.

Indexed as

DNA Copy Number VariationsNeoplasms, Germ Cell and EmbryonalTesticular NeoplasmsAdultGenome, HumanGenomicsHumansMaleMutationSeminomaWhole Genome Sequencing

Identifiers

PMID39461959
PMCPMC11513037

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.