Resource type
Date created
2019-06-21
Authors/Contributors
Author: Malikic, Salem
Author: Jahn, Katharina
Author: Kuipers, Jack
Author: Sahinalp, S. Cenk
Author: Beerenwinkel, Niko
Abstract
Understanding the clonal architecture and evolutionary history of a tumour poses one of the key challenges to overcome treatment failure due to resistant cell populations. Previously, studies on subclonal tumour evolution have been primarily based on bulk sequencing and in some recent cases on single-cell sequencing data. Either data type alone has shortcomings with regard to this task, but methods integrating both data types have been lacking. Here, we present B-SCITE, the first computational approach that infers tumour phylogenies from combined single-cell and bulk sequencing data. Using a comprehensive set of simulated data, we show that B-SCITE systematically outperforms existing methods with respect to tree reconstruction accuracy and subclone identification. B-SCITE provides high-fidelity reconstructions even with a modest number of single cells and in cases where bulk allele frequencies are affected by copy number changes. On real tumour data, B-SCITE generated mutation histories show high concordance with expert generated trees.
Document
Published as
Malikic, S., Jahn, K., Kuipers, J., Sahinalp, S. C., & Beerenwinkel, N. (2019, June 21). Integrative inference of subclonal tumour evolution from single-cell and bulk sequencing data. Retrieved from https://www.nature.com/articles/s41467-019-10737-5. DOI: 10.1038/s41467-019-10737-5
Publication details
Document title
Integrative inference of subclonal tumour evolution from single-cell and bulk sequencing data
Date
Publisher DOI
10.1038/s41467-019-10737-5
Published article URL
Rights (standard)
Copyright statement
Copyright is held by the author(s).
Scholarly level
Peer reviewed?
Yes
Language
English
Member of collection
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s41467-019-10737-5.pdf | 1.05 MB |