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

Nat Methods. 2015 Oct;12(10):947-950. doi: 10.1038/nmeth.3549. Epub 2015 Aug 24.


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.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms
  • Analysis of Variance
  • Data Interpretation, Statistical*
  • Embryonic Stem Cells / physiology
  • Gene Expression Profiling / methods
  • Gene Expression Profiling / statistics & numerical data
  • Humans
  • Models, Genetic*
  • Real-Time Polymerase Chain Reaction / methods
  • Sequence Analysis, RNA / methods*
  • Sequence Analysis, RNA / statistics & numerical data
  • Single-Cell Analysis / methods*
  • Single-Cell Analysis / statistics & numerical data
  • Software