FunGraph: A statistical protocol to reconstruct omnigenic multilayer interactome networks for complex traits
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Updated: Oct 9, 2025

Quantification of Protein Interaction Network Dynamics using Multiplexed Co-Immunoprecipitation
Published on: August 21, 2019
Ang Dong1, Li Feng1, Dengcheng Yang1
1Center for Computational Biology, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China.
Abstract:
We describe a statistical protocol of how to reconstruct and dissect functional omnigenic multilayer interactome networks that mediate complex dynamic traits in a genome-wide association study (GWAS). This protocol, named FunGraph, can analyze how each locus affects phenotypic variation through its own direct effect and a complete set of indirect effects due to regulation by other loci co-existing in large-scale networks. FunGraph is applicable to any GWAS aimed to characterize the genetic architecture of dynamic phenotypic traits. For complete details on the use and execution of this protocol, please refer to Wang et al. (2021).
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