Journal
NATURE COMMUNICATIONS
Volume 8, Issue -, Pages -Publisher
NATURE PUBLISHING GROUP
DOI: 10.1038/ncomms15943
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Funding
- Medical Research Council [G0902418]
- Ovarian Cancer Action [HER00070]
- Oxford Biomedical Research Centre, National Institute of Health Research [IS-BRC-0211-10025]
- China Scholarship Council-Nuffield Department of Medicine Scholarships from the China Scholarship Council (on behalf of the Chinese Ministry of Education) [GAF1516_CSCUO_839316]
- University of Oxford
- UK Medical Research Council [MR/L001411/1]
- Wellcome Trust [090532/Z/09/Z]
- MRC [G0902418, MR/L001411/1] Funding Source: UKRI
- Medical Research Council [MR/L001411/1, G0902418] Funding Source: researchfish
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Nonsense-mediated decay (NMD) eliminates transcripts with premature termination codons. Although NMD-induced loss-of-function has been shown to contribute to the genesis of particular cancers, its global functional consequence in tumours has not been characterized. Here we develop an algorithm to predict NMD and apply it on somatic mutations reported in The Cancer Genome Atlas. We identify more than 73 K mutations that are predicted to elicit NMD (NMD-elicit). NMD-elicit mutations in tumour suppressor genes (TSGs) are associated with significant reduction in gene expression. We discover cancer-specific NMD-elicit signatures in TSGs and cancer-associated genes. Our analysis reveals a previously unrecognized dependence of hypermutated tumours on hypofunction of genes that are involved in chromatin remodelling and translation. Half of hypermutated stomach adenocarcinomas are associated with NMD-elicit mutations of the translation initiators LARP4B and EIF5B. Our results unravel strong therapeutic opportunities by targeting tumour dependencies on NMD-elicit mutations.
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