Interactive analysis and assessment of single-cell copy-number variations.
Interactive analysis and assessment of single-cell copy-number variations.
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DOI：
10.1038/nmeth.3578
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发表时间：
2015-11
期刊：
影响因子：
48
通讯作者：
Schatz MC
中科院分区：
文献类型：
--
作者：
Garvin T;Aboukhalil R;Kendall J;Baslan T;Atwal GS;Hicks J;Wigler M;Schatz MC
我们提出了一个开源的网络平台，Ginkgo (http://qb.cshl.edu/ginkgo)，用于分析和评估单细胞拷贝数变异（CNVs）。Ginkgo自动构建拷贝数图谱，并构建相关细胞的系统发育树。我们通过复制五项主要研究的结果来验证银杏，并检查了三种常用的单细胞扩增技术的特点，得出退化寡核苷酸引物PCR是最一致的CNV分析方法。
We present an open-source web platform, Ginkgo (http://qb.cshl.edu/ginkgo), for the analysis and assessment of single-cell copy-number variations (CNVs). Ginkgo automatically constructs copy-number profiles of cells from mapped reads and constructs phylogenetic trees of related cells. We validate Ginkgo by reproducing the results of five major studies and examine the characteristics of three commonly used single-cell amplification techniques to conclude degenerate oligonucleotide-primed PCR to be the most consistent for CNV analysis.