Accurate identification of single nucleotide variants in whole genome amplified single cells

Genome-wide, DNA mutation analysis in single cells is prone to artifacts associated with cell lysis and whole genome amplification. Here we addressed these issues by developing Single-Cell Multiple Displacement Amplification (SCMDA) and the single-cell variant caller, SCcaller. Validated by comparin...

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Autores principales: Dong, Xiao, Zhang, Lei, Milholland, Brandon, Lee, Moonsook, Maslov, Alexander Y., Wang, Tao, Vijg, Jan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2017
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5408311/
https://www.ncbi.nlm.nih.gov/pubmed/28319112
http://dx.doi.org/10.1038/nmeth.4227
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author Dong, Xiao
Zhang, Lei
Milholland, Brandon
Lee, Moonsook
Maslov, Alexander Y.
Wang, Tao
Vijg, Jan
author_facet Dong, Xiao
Zhang, Lei
Milholland, Brandon
Lee, Moonsook
Maslov, Alexander Y.
Wang, Tao
Vijg, Jan
author_sort Dong, Xiao
collection PubMed
description Genome-wide, DNA mutation analysis in single cells is prone to artifacts associated with cell lysis and whole genome amplification. Here we addressed these issues by developing Single-Cell Multiple Displacement Amplification (SCMDA) and the single-cell variant caller, SCcaller. Validated by comparing SCMDA-amplified single cells with unamplified clones from the same population, the procedure provides a firm foundation for standardizing somatic mutation analysis in single-cell genomics.
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spelling pubmed-54083112017-11-01 Accurate identification of single nucleotide variants in whole genome amplified single cells Dong, Xiao Zhang, Lei Milholland, Brandon Lee, Moonsook Maslov, Alexander Y. Wang, Tao Vijg, Jan Nat Methods Article Genome-wide, DNA mutation analysis in single cells is prone to artifacts associated with cell lysis and whole genome amplification. Here we addressed these issues by developing Single-Cell Multiple Displacement Amplification (SCMDA) and the single-cell variant caller, SCcaller. Validated by comparing SCMDA-amplified single cells with unamplified clones from the same population, the procedure provides a firm foundation for standardizing somatic mutation analysis in single-cell genomics. 2017-03-20 2017-05 /pmc/articles/PMC5408311/ /pubmed/28319112 http://dx.doi.org/10.1038/nmeth.4227 Text en Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Dong, Xiao
Zhang, Lei
Milholland, Brandon
Lee, Moonsook
Maslov, Alexander Y.
Wang, Tao
Vijg, Jan
Accurate identification of single nucleotide variants in whole genome amplified single cells
title Accurate identification of single nucleotide variants in whole genome amplified single cells
title_full Accurate identification of single nucleotide variants in whole genome amplified single cells
title_fullStr Accurate identification of single nucleotide variants in whole genome amplified single cells
title_full_unstemmed Accurate identification of single nucleotide variants in whole genome amplified single cells
title_short Accurate identification of single nucleotide variants in whole genome amplified single cells
title_sort accurate identification of single nucleotide variants in whole genome amplified single cells
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5408311/
https://www.ncbi.nlm.nih.gov/pubmed/28319112
http://dx.doi.org/10.1038/nmeth.4227
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