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scAbsolute: measuring single-cell ploidy and replication status.

Published version
Peer-reviewed

Repository DOI


Change log

Authors

Schneider, Michael P 
Cullen, Amy E 
Pangonyte, Justina 
Skelton, Jason 
Major, Harvey 

Abstract

Cancer cells often exhibit DNA copy number aberrations and can vary widely in their ploidy. Correct estimation of the ploidy of single-cell genomes is paramount for downstream analysis. Based only on single-cell DNA sequencing information, scAbsolute achieves accurate and unbiased measurement of single-cell ploidy and replication status, including whole-genome duplications. We demonstrate scAbsolute's capabilities using experimental cell multiplets, a FUCCI cell cycle expression system, and a benchmark against state-of-the-art methods. scAbsolute provides a robust foundation for single-cell DNA sequencing analysis across different technologies and has the potential to enable improvements in a number of downstream analyses.

Description

Keywords

Cell cycle stage, Ploidy estimation, Singe-cell genomics, Single-cell DNA sequencing, Whole-genome doubling, Whole-genome duplication, Benchmarking, Cell Cycle, Cell Division, Ploidies, Sequence Analysis, DNA

Journal Title

Genome Biol

Conference Name

Journal ISSN

1474-7596
1474-760X

Volume Title

25

Publisher

Springer Science and Business Media LLC
Sponsorship
Cancer Research UK (A19274)
UK Research and Innovation (EP/X028054/1)