Annotating regulatory elements by heterogeneous network embedding.

ABSTRACT:

Motivation

Regulatory elements (REs), such as enhancers and promoters, are known as regulatory sequences functional in a heterogeneous regulatory network to control gene expression by recruiting transcription regulators and carrying genetic variants in a context specific way. Annotating those REs relies on costly and labor-intensive next-generation sequencing and RNA-guided editing technologies in many cellular contexts.

Results

We propose a systematic Gene Ontology Annotation method for Regulatory Elements (RE-GOA) by leveraging the powerful word embedding in natural language processing. We first assemble a heterogeneous network by integrating context specific regulations, protein-protein interactions and gene ontology (GO) terms. Then we perform network embedding and assoc

SUBMITTER: Lu Y 

PROVIDER: S-EPMC9326849 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature