ArticlePLoS genetics2018
One for all and all for One: Improving replication of genetic studies through network diffusion.
Article in PLoS genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Human CSF proteogenomics links genetic variation to neurodegenerative disease proteins.medRxiv : the preprint server for health sciences · 2026Article
- Unraveling the Mysteries of Alzheimer's Disease Using Artificial Intelligence.Reviews on recent clinical trials · 2025Review
- Whole-genome sequencing study in Koreans identifies novel loci for Alzheimer's disease.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2024Article
- The combined use of scRNA-seq and network propagation highlights key features of pan-cancer Tumor-Infiltrating T cells.PloS one · 2024Article
- NIAPU: network-informed adaptive positive-unlabeled learning for disease gene identification.Bioinformatics (Oxford, England) · 2023Article
- SHARPIN: Role in Finding NEMO and in Amyloid-Beta Clearance and Degradation (ABCD) Pathway in Alzheimer's Disease?Cellular and molecular neurobiology · 2022Review
- A missense variant in SHARPIN mediates Alzheimer's disease-specific brain damages.Translational psychiatry · 2021Article
- Integrative brain transcriptome analysis links complement component 4 and HSPA2 to the APOE ε2 protective effect in Alzheimer disease.Molecular psychiatry · 2021Article
- Common variants in Alzheimer's disease and risk stratification by polygenic risk scores.Nature communications · 2021Article
- Network propagation of rare variants in Alzheimer's disease reveals tissue-specific hub genes and communities.PLoS computational biology · 2021Article
- The Application of Artificial Intelligence in the Genetic Study of Alzheimer's Disease.Aging and disease · 2020Review
- We need to keep a reproducible trace of facts, predictions, and hypotheses from gene to function in the era of big data.PLoS biology · 2020Article
- Analysis of brain region-specific co-expression networks reveals clustering of established and novel genes associated with Alzheimer disease.Alzheimer's research & therapy · 2020Article
- Imaging genomics discovery of a new risk variant for Alzheimer's disease in the postsynaptic SHARPIN gene.Human brain mapping · 2020Article
- A rare functional variant of SHARPIN attenuates the inflammatory response and associates with increased risk of late-onset Alzheimer's disease.Molecular medicine (Cambridge, Mass.) · 2019Article
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9 authors.
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Abstract
Improving accuracy in genetic studies would greatly accelerate understanding the genetic basis of complex diseases. One approach to achieve such an improvement for risk variants identified by the genome wide association study (GWAS) approach is to incorporate previously known biology when screening variants across the genome. We developed a simple approach for improving the prioritization of candidate disease genes that incorporates a network diffusion of scores from known disease genes using a protein network and a novel integration with GWAS risk scores, and tested this approach on a large Alzheimer disease (AD) GWAS dataset. Using a statistical bootstrap approach, we cross-validated the method and for the first time showed that a network approach improves the expected replication rates in GWAS studies. Several novel AD genes were predicted including CR2, SHARPIN, and PTPN2. Our re-prioritized results are enriched for established known AD-associated biological pathways including inflammation, immune response, and metabolism, whereas standard non-prioritized results were not. Our findings support a strategy of considering network information when investigating genetic risk factors.
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