FastGCN: a GPU accelerated tool for fast gene co-expression networks.

ABSTRACT: Gene co-expression networks comprise one type of valuable biological networks. Many methods and tools have been published to construct gene co-expression networks; however, most of these tools and methods are inconvenient and time consuming for large datasets. We have developed a user-friendly, accelerated and optimized tool for constructing gene co-expression networks that can fully harness the parallel nature of GPU (Graphic Processing Unit) architectures. Genetic entropies were exploited to filter out genes with no or small expression changes in the raw data preprocessing step. Pearson correlation coefficients were then calculated. After that, we normalized these coefficients and employed the False Discovery Rate to control the multiple tests. At last, modules identification was conduct

SUBMITTER: Liang M 

PROVIDER: S-EPMC4300192 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature