Introduction

Oscillatory gene expression is fundamental to development, but technologies for monitoring 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. Applying Oscope to a number of data sets, we demonstrated its utility and also identified a potential artifact in the Fluidigm C1 platform.

Publications

  1. Oscope identifies oscillatory genes in unsynchronized single-cell RNA-seq experiments.
    Cite this
    Leng N, Chu LF, Barry C, Li Y, Choi J, Li X, Jiang P, Stewart RM, Thomson JA, Kendziorski C, 2015-10-01 - Nature methods

Credits

  1. Ning Leng
    Developer

    Morgridge Institute for Research, Madison, United States of America

  2. Li-Fang Chu
    Developer

    Morgridge Institute for Research, Madison, United States of America

  3. Chris Barry
    Developer

    Morgridge Institute for Research, Madison, United States of America

  4. Yuan Li
    Developer

    Department of Statistics, University of Wisconsin, United States of America

  5. Jeea Choi
    Developer

    Department of Statistics, University of Wisconsin, United States of America

  6. Xiaomao Li
    Developer

    Department of Statistics, University of Wisconsin, United States of America

  7. Peng Jiang
    Developer

    Morgridge Institute for Research, Madison, United States of America

  8. Ron M Stewart
    Developer

    Morgridge Institute for Research, Madison, United States of America

  9. James A Thomson
    Developer

    Department of Molecular, Cellular, United States of America

  10. Christina Kendziorski
    Investigator

    Department of Biostatistics and Medical Informatics, University of Wisconsin, United States of America

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Summary
AccessionBT006798
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesR
User InterfaceTerminal Command Line
Download Count0
Country/RegionUnited States of America
Submitted ByChristina Kendziorski