PhenoGeneRanker: Gene and Phenotype Prioritization Using Multiplex Heterogeneous Networks.

ABSTRACT: Uncovering genotype-phenotype relationships is a fundamental challenge in genomics. Gene prioritization is an important step for this endeavor to make a short manageable list from a list of thousands of genes coming from high-throughput studies. Network propagation methods are promising and state of the art methods for gene prioritization based on the premise that functionally related genes tend to be close to each other in the biological networks. Recently, we introduced PhenoGeneRanker, a network-propagation algorithm for multiplex heterogeneous networks. PhenoGeneRanker allows multi-layer gene and phenotype networks. It also calculates empirical p values of gene and phenotype ranks using random stratified sampling of seeds of genes and phenotypes based on their connectivity degree in th

SUBMITTER: Dursun C 

PROVIDER: S-EPMC9704494 | biostudies-literature | 2022 Sep-Oct

REPOSITORIES: biostudies-literature