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Precise identification of cancer cells from allelic imbalances in single cell transcriptomes.

Mi K TrinhClarissa N PacynaGerda KildisiuteChristine ThevanesanAlice PiapiKirsty AmbridgeNathaniel D AndersonEleonora KhabirovaElena PrigmoreKarin StraathofSam BehjatiMatthew D Young
Published in: Communications biology (2022)
A fundamental step of tumour single cell mRNA analysis is separating cancer and non-cancer cells. We show that the common approach to separation, using shifts in average expression, can lead to erroneous biological conclusions. By contrast, allelic imbalances representing copy number changes directly detect the cancer genotype and accurately separate cancer from non-cancer cells. Our findings provide a definitive approach to identifying cancer cells from single cell mRNA sequencing data.
Keyphrases
  • single cell
  • papillary thyroid
  • copy number
  • rna seq
  • squamous cell
  • high throughput
  • mitochondrial dna
  • dna methylation
  • childhood cancer
  • gene expression
  • electronic health record
  • data analysis