Precise identification of cancer cells from allelic imbalances in single cell transcriptomes.
Journal
Communications biology
ISSN: 2399-3642
Titre abrégé: Commun Biol
Pays: England
ID NLM: 101719179
Informations de publication
Date de publication:
07 09 2022
07 09 2022
Historique:
received:
10
01
2022
accepted:
05
08
2022
entrez:
7
9
2022
pubmed:
8
9
2022
medline:
11
9
2022
Statut:
epublish
Résumé
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.
Identifiants
pubmed: 36071103
doi: 10.1038/s42003-022-03808-9
pii: 10.1038/s42003-022-03808-9
pmc: PMC9452529
doi:
Substances chimiques
RNA, Messenger
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
884Subventions
Organisme : Wellcome Trust
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 223135/Z/21/Z
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 206194
Pays : United Kingdom
Organisme : Wellcome Trust
ID : 108413/A/15/D
Pays : United Kingdom
Informations de copyright
© 2022. The Author(s).
Références
Genome Res. 2018 Aug;28(8):1217-1227
pubmed: 29898899
Sci Data. 2018 Oct 30;5:180240
pubmed: 30375995
Proc Natl Acad Sci U S A. 2010 Sep 28;107(39):16910-5
pubmed: 20837533
Genome Biol. 2014;15(12):550
pubmed: 25516281
Nat Commun. 2020 Jan 3;11(1):89
pubmed: 31900397
Cell Syst. 2019 Apr 24;8(4):281-291.e9
pubmed: 30954476
Nat Commun. 2021 Jun 23;12(1):3896
pubmed: 34162837
Nat Biotechnol. 2021 May;39(5):599-608
pubmed: 33462507
Cell. 2018 Apr 19;173(3):611-623.e17
pubmed: 29656891
Sci Adv. 2021 Feb 5;7(6):
pubmed: 33547074
Nat Genet. 2021 May;53(5):683-693
pubmed: 33767450
Oncogene. 2008 May 8;27(21):3066-71
pubmed: 18071318
Science. 2018 Aug 10;361(6402):594-599
pubmed: 30093597
Cell. 2012 May 25;149(5):994-1007
pubmed: 22608083