SCODE: an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation.

ABSTRACT:

Motivation

The analysis of RNA-Seq data from individual differentiating cells enables us to reconstruct the differentiation process and the degree of differentiation (in pseudo-time) of each cell. Such analyses can reveal detailed expression dynamics and functional relationships for differentiation. To further elucidate differentiation processes, more insight into gene regulatory networks is required. The pseudo-time can be regarded as time information and, therefore, single-cell RNA-Seq data are time-course data with high time resolution. Although time-course data are useful for inferring networks, conventional inference algorithms for such data suffer from high time complexity when the number of samples and genes is large. Therefore, a novel algorithm is necessary to infer networ

SUBMITTER: Matsumoto H 

PROVIDER: S-EPMC5860123 | biostudies-literature | 2017 Aug

REPOSITORIES: biostudies-literature