Tree inference for single-cell data

被引：185

作者：

Jahn, Katharina ^{[1
,2
]}

Kuipers, Jack ^{[1
,2
]}

Beerenwinkel, Niko ^{[1
,2
]}

机构：

[1] Swiss Fed Inst Technol, Dept Biosyst Sci & Engn, Basel, Switzerland

[2] Swiss Inst Bioinformat, Basel, Switzerland

来源：

GENOME BIOLOGY | 2016年 / 17卷

关键词：

CLONAL EVOLUTION; CANCER; HETEROGENEITY; FRAMEWORK; HISTORY;

D O I：

10.1186/s13059-016-0936-x

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Understanding the mutational heterogeneity within tumors is a keystone for the development of efficient cancer therapies. Here, we present SCITE, a stochastic search algorithm to identify the evolutionary history of a tumor from noisy and incomplete mutation profiles of single cells. SCITE comprises a flexible Markov chain Monte Carlo sampling scheme that allows the user to compute the maximum-likelihood mutation history, to sample from the posterior probability distribution, and to estimate the error rates of the underlying sequencing experiments. Evaluation on real cancer data and on simulation studies shows the scalability of SCITE to present-day single-cell sequencing data and improved reconstruction accuracy compared to existing approaches.

引用

页数：17

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