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Spatial transcripto...
Spatial transcriptomic analysis of virtual prostate biopsy reveals confounding effect of tissue heterogeneity on genomic signatures
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- Figiel, Sandy (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Yin, Wencheng (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Doultsinos, Dimitrios (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Erickson, Andrew (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Poulose, Ninu (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Singh, Reema (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Magnussen, Anette (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Anbarasan, Thineskrishna (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Urology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- Teague, Renuka (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Cellular Pathology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- He, Mengxiao (författare)
- KTH,Genteknologi,Science for Life Laboratory, SciLifeLab
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- Lundeberg, Joakim (författare)
- KTH,Science for Life Laboratory, SciLifeLab,Genteknologi
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- Loda, Massimo (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Pathology and Laboratory Medicine, Weill Cornell Medicine, New York, NY, USA
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- Verrill, Clare (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Cellular Pathology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK; Oxford NIHR Biomedical Research Centre, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- Colling, Richard (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Cellular Pathology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- Gill, Pelvender S. (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Cellular Pathology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- Bryant, Richard J. (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Urology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK; Oxford NIHR Biomedical Research Centre, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- Hamdy, Freddie C. (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Urology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK; Oxford NIHR Biomedical Research Centre, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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- Woodcock, Dan J. (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Mills, Ian G. (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Cussenot, Olivier (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK
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- Lamb, Alastair D. (författare)
- Nuffield Department of Surgical Sciences, University of Oxford, Old Road Campus Research Building, Oxford, OX3 7DQ, UK; Department of Urology, Oxford University Hospitals NHS Foundation Trust, Oxford, UK; Oxford NIHR Biomedical Research Centre, Oxford University Hospitals NHS Foundation Trust, Oxford, UK
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(creator_code:org_t)
- Springer Nature, 2023
- 2023
- Engelska.
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Ingår i: Molecular Cancer. - : Springer Nature. - 1476-4598. ; 22:1, s. 162-
- Relaterad länk:
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https://doi.org/10.1...
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https://urn.kb.se/re...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Genetic signatures have added a molecular dimension to prognostics and therapeutic decision-making. However, tumour heterogeneity in prostate cancer and current sampling methods could confound accurate assessment. Based on previously published spatial transcriptomic data from multifocal prostate cancer, we created virtual biopsy models that mimic conventional biopsy placement and core size. We then analysed the gene expression of different prognostic signatures (OncotypeDx®, Decipher®, Prostadiag®) using a step-wise approach with increasing resolution from pseudo-bulk analysis of the whole biopsy, to differentiation by tissue subtype (benign, stroma, tumour), followed by distinct tumour grade and finally clonal resolution. The gene expression profile of virtual tumour biopsies revealed clear differences between grade groups and tumour clones, compared to a benign control, which were not reflected in bulk analyses. This suggests that bulk analyses of whole biopsies or tumour-only areas, as used in clinical practice, may provide an inaccurate assessment of gene profiles. The type of tissue, the grade of the tumour and the clonal composition all influence the gene expression in a biopsy. Clinical decision making based on biopsy genomics should be made with caution while we await more precise targeting and cost-effective spatial analyses.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Cancer och onkologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Cancer and Oncology (hsv//eng)
Nyckelord
- Prognostic genetic signatures
- Prostate cancer
- Spatial transcriptomics
- Virtual biopsy
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- Av författaren/redakt...
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Figiel, Sandy
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Yin, Wencheng
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Doultsinos, Dimi ...
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Erickson, Andrew
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Poulose, Ninu
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Singh, Reema
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Magnussen, Anett ...
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Anbarasan, Thine ...
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Teague, Renuka
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He, Mengxiao
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Lundeberg, Joaki ...
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Loda, Massimo
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Verrill, Clare
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Colling, Richard
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Gill, Pelvender ...
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Bryant, Richard ...
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Hamdy, Freddie C ...
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Woodcock, Dan J.
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Mills, Ian G.
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Cussenot, Olivie ...
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Lamb, Alastair D ...
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- Om ämnet
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- MEDICIN OCH HÄLSOVETENSKAP
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MEDICIN OCH HÄLS ...
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och Klinisk medicin
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och Cancer och onkol ...
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Molecular Cancer
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