Visualizing tumor evolution with the fishplot package for R

被引：127

作者：

Miller, Christopher A. ^{[1
,2
]}

McMichael, Joshua ^{[1
]}

Dang, Ha X. ^{[1
,3
]}

Maher, Christopher A. ^{[1
,3
]}

Ding, Li ^{[1
,3
]}

Ley, Timothy J. ^{[1
,3
]}

Mardis, Elaine R. ^{[1
,3
,4
]}

Wilson, Richard K. ^{[1
,2
,3
,4
]}

机构：

[1] Washington Univ, Sch Med, McDonnell Genome Inst, St Louis, MO 63108 USA

[2] Washington Univ, Sch Med, Dept Med, Div Genom & Bioinformat, St Louis, MO 63108 USA

[3] Washington Univ, Sch Med, Dept Med, Div Oncol, St Louis, MO 63108 USA

[4] Washington Univ, Sch Med, Dept Genet, St Louis, MO 63108 USA

来源：

BMC GENOMICS | 2016年 / 17卷

关键词：

CLONAL EVOLUTION; CANCER;

D O I：

10.1186/s12864-016-3195-z

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：

Background: Massively-parallel sequencing at depth is now enabling tumor heterogeneity and evolution to be characterized in unprecedented detail. Tracking these changes in clonal architecture often provides insight into therapeutic response and resistance. In complex cases involving multiple timepoints, standard visualizations, such as scatterplots, can be difficult to interpret. Current data visualization methods are also typically manual and laborious, and often only approximate subclonal fractions. Results: We have developed an R package that accurately and intuitively displays changes in clonal structure over time. It requires simple input data and produces illustrative and easy-to-interpret graphs suitable for diagnosis, presentation, and publication. Conclusions: The simplicity, power, and flexibility of this tool make it valuable for visualizing tumor evolution, and it has potential utility in both research and clinical settings. The fishplot package is available at https://github.com/chrisamiller/fishplot.

引用

页数：3

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