Interactive analysis and assessment of single-cell copy-number variations.
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ABSTRACT:
SUBMITTER: Garvin T
PROVIDER: S-EPMC4775251 | biostudies-literature | 2015 Nov
REPOSITORIES: biostudies-literature
Publications
Interactive analysis and assessment of single-cell copy-number variations.
Garvin Tyler T Aboukhalil Robert R Kendall Jude J Baslan Timour T Atwal Gurinder S GS Hicks James J Wigler Michael M Schatz Michael C MC
Nature methods 20150907 11
We present Ginkgo (http://qb.cshl.edu/ginkgo), a user-friendly, open-source web platform for the analysis 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 validated Ginkgo by reproducing the results of five major studies. After comparing three commonly used single-cell amplification techniques, we concluded that degenerate oligonucleotide-primed PCR is the most cons ...[more]
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