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- Title
Interactive analysis and assessment of single-cell copy-number variations.
- Authors
Garvin, Tyler; Aboukhalil, Robert; Kendall, Jude; Baslan, Timour; Atwal, Gurinder S; Hicks, James; Wigler, Michael; Schatz, Michael C
- Abstract
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 consistent for CNV analysis.
- Subjects
SINGLE cell lipids; PHYLOGENY; CELL analysis; OLIGONUCLEOTIDES; GENE amplification
- Publication
Nature Methods, 2015, Vol 12, Issue 11, p1058
- ISSN
1548-7091
- Publication type
Article
- DOI
10.1038/nmeth.3578