ArticleBioinformatics (Oxford, England)2015
EW_dmGWAS: edge-weighted dense module search for genome-wide association studies and gene expression profiles.
Article in Bioinformatics (Oxford, England), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers, 1 of them a synthesis that pooled it.
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Who cites it
40 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
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- Unveiling Gene Interactions in Alzheimer's Disease by Integrating Genetic and Epigenetic Data with a Network-Based Approach.Epigenomes · 2024Article
- networkGWAS: a network-based approach to discover genetic associations.Bioinformatics (Oxford, England) · 2023Article
- Predicting disease genes based on multi-head attention fusion.BMC bioinformatics · 2023Article
- Identifying candidate genes and drug targets for Alzheimer's disease by an integrative network approach using genetic and brain region-specific proteomic data.Human molecular genetics · 2022Article
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- Systems-Level Analysis of Genetic Variants Reveals Functional and Spatiotemporal Context in Treatment-resistant Schizophrenia.Molecular neurobiology · 2022Article
- M2PP: a novel computational model for predicting drug-targeted pathogenic proteins.BMC bioinformatics · 2022Article
- Dissecting Meta-Analysis in GWAS Era: Bayesian Framework for Gene/Subnetwork-Specific Meta-Analysis.Frontiers in genetics · 2022Article
- Prognostic Implications and Immune Infiltration Characteristics of Chromosomal Instability-Related Dysregulated CeRNA in Lung Adenocarcinoma.Frontiers in molecular biosciences · 2022Article
- Distinct effect of prenatal and postnatal brain expression across 20 brain disorders and anthropometric social traits: a systematic study of spatiotemporal modularity.Briefings in bioinformatics · 2021Article
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- An integrative study of genetic variants with brain tissue expression identifies viral etiology and potential drug targets of multiple sclerosis.Molecular and cellular neurosciences · 2021Article
- An epigenetic pathway in rice connects genetic variation to anaerobic germination and seedling establishment.Plant physiology · 2021Article
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- Characterization of genome-wide association study data reveals spatiotemporal heterogeneity of mental disorders.BMC medical genomics · 2020Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
We previously developed dmGWAS to search for dense modules in a human protein-protein interaction (PPI) network; it has since become a popular tool for network-assisted analysis of genome-wide association studies (GWAS). dmGWAS weights nodes by using GWAS signals. Here, we introduce an upgraded algorithm, EW_dmGWAS, to boost GWAS signals in a node- and edge-weighted PPI network. In EW_dmGWAS, we utilize condition-specific gene expression profiles for edge weights. Specifically, differential gene co-expression is used to infer the edge weights. We applied EW_dmGWAS to two diseases and compared it with other relevant methods. The results suggest that EW_dmGWAS is more powerful in detecting disease-associated signals.
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