Deciphering the association between gene function and spatial gene-gene interactions in 3D human genome conformation.

ABSTRACT:

Background

A number of factors have been investigated in the context of gene function prediction and analysis, such as sequence identity, gene expressions, and gene co-evolution. However, three-dimensional (3D) conformation of the genome has not been tapped to analyse gene function, probably largely due to lack of genome conformation data until recently.

Methods

We construct the genome-wide spatial gene-gene interaction networks for three different human B-cells or cell lines from their chromosomal contact data generated by the Hi-C chromosome conformation capturing technique. The G-SESAME and Fast-SemSim are used to calculate function similarity between interacted / non-interacted genes. The Gene Ontology statistics computed from the gene-gene interaction networks is used f

SUBMITTER: Cao R 

PROVIDER: S-EPMC4625479 | biostudies-literature | 2015 Oct

REPOSITORIES: biostudies-literature