Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments

Oscillatory gene expression is fundamental to mammalian development, but technologies to monitor expression oscillations are limited. We have developed a statistical approach called Oscope to identify and characterize the transcriptional dynamics of oscillating genes in single-cell RNA-seq data from...

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Autores principales: Leng, Ning, Chu, Li-Fang, Barry, Chris, Li, Yuan, Choi, Jeea, Li, Xiaomao, Jiang, Peng, Stewart, Ron M., Thomson, James A., Kendziorski, Christina
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2015
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4589503/
https://www.ncbi.nlm.nih.gov/pubmed/26301841
http://dx.doi.org/10.1038/nmeth.3549
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author Leng, Ning
Chu, Li-Fang
Barry, Chris
Li, Yuan
Choi, Jeea
Li, Xiaomao
Jiang, Peng
Stewart, Ron M.
Thomson, James A.
Kendziorski, Christina
author_facet Leng, Ning
Chu, Li-Fang
Barry, Chris
Li, Yuan
Choi, Jeea
Li, Xiaomao
Jiang, Peng
Stewart, Ron M.
Thomson, James A.
Kendziorski, Christina
author_sort Leng, Ning
collection PubMed
description Oscillatory gene expression is fundamental to mammalian development, but technologies to monitor expression oscillations are limited. We have developed a statistical approach called Oscope to identify and characterize the transcriptional dynamics of oscillating genes in single-cell RNA-seq data from an unsynchronized cell population. Applications to a number of data sets demonstrate the utility of the approach and also identify a potential artifact in the Fluidigm C1 platform.
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spelling pubmed-45895032016-04-01 Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments Leng, Ning Chu, Li-Fang Barry, Chris Li, Yuan Choi, Jeea Li, Xiaomao Jiang, Peng Stewart, Ron M. Thomson, James A. Kendziorski, Christina Nat Methods Article Oscillatory gene expression is fundamental to mammalian development, but technologies to monitor expression oscillations are limited. We have developed a statistical approach called Oscope to identify and characterize the transcriptional dynamics of oscillating genes in single-cell RNA-seq data from an unsynchronized cell population. Applications to a number of data sets demonstrate the utility of the approach and also identify a potential artifact in the Fluidigm C1 platform. 2015-08-24 2015-10 /pmc/articles/PMC4589503/ /pubmed/26301841 http://dx.doi.org/10.1038/nmeth.3549 Text en http://www.nature.com/authors/editorial_policies/license.html#terms 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
Leng, Ning
Chu, Li-Fang
Barry, Chris
Li, Yuan
Choi, Jeea
Li, Xiaomao
Jiang, Peng
Stewart, Ron M.
Thomson, James A.
Kendziorski, Christina
Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments
title Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments
title_full Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments
title_fullStr Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments
title_full_unstemmed Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments
title_short Oscope identifies oscillatory genes in unsynchronized single cell RNA-seq experiments
title_sort oscope identifies oscillatory genes in unsynchronized single cell rna-seq experiments
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4589503/
https://www.ncbi.nlm.nih.gov/pubmed/26301841
http://dx.doi.org/10.1038/nmeth.3549
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