KEGG2Net: Deducing gene interaction networks and acyclic graphs from KEGG pathways.

ABSTRACT: The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway database provides a manual curation of biological pathways that involve genes (or gene products), metabolites, chemical compounds, maps, and other entries. However, most applications and datasets involved in omics are gene or protein-centric requiring pathway representations that include direct and indirect interactions only between genes. Furthermore, special methodologies, such as Bayesian networks require acyclic representations of graphs. We developed KEGG2Net, a web resource that generates a network involving only the genes represented on a KEGG pathway with all of the direct and indirect gene-gene interactions deduced from the pathway. KEGG2Net offers four different methods to remove cycles from the resulting gene interaction

SUBMITTER: Chanumolu SK 

PROVIDER: S-EPMC8055051 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature