Efficient inference for sparse latent variable models of transcriptional regulation.

ABSTRACT:

Motivation

Regulation of gene expression in prokaryotes involves complex co-regulatory mechanisms involving large numbers of transcriptional regulatory proteins and their target genes. Uncovering these genome-scale interactions constitutes a major bottleneck in systems biology. Sparse latent factor models, assuming activity of transcription factors (TFs) as unobserved, provide a biologically interpretable modelling framework, integrating gene expression and genome-wide binding data, but at the same time pose a hard computational inference problem. Existing probabilistic inference methods for such models rely on subjective filtering and suffer from scalability issues, thus are not well-suited for realistic genome-scale applications.

Results

We present a fast Bayesian sparse f

SUBMITTER: Dai Z 

PROVIDER: S-EPMC5860323 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature