Spatial transcriptomics method maps somatic copy number clones in tumours
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Researchers have posted a computational framework that infers somatic copy number aberrations (SCNAs) directly from Xenium spatial transcriptomics data and maps clones sharing the same aberrations. Applied to ovarian, cervical and breast cancer datasets, the method identified spatially coherent cell populations defined by SCNAs and reproduced known tumour-associated copy number aberrations and pathological states. The preprint, posted on bioRxiv in Cancer Biology on 27 October 2026, is aimed at studying early cancer development. Open questions include how the approach performs across other tumour types and platforms, and whether clone maps inferred this way can resolve early malignant progression in clinical tissue.
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- biorxiv.orgInferring somatic copy number aberrations from spatial transcriptomics data to study early cancer development
Researchers developed a computational framework that infers somatic copy number aberrations (SCNAs) directly from Xenium spatial transcriptomics data and maps shared clones. Applied to ovarian, cervical and breast cancer datasets, the method identified spatially coherent SCNA-defined cell populations and recapitulated known tumour-associated copy number aberrations and pathological states.
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