ArticleProceedings of the National Academy of Sciences of the United States of America2017
Exploring regulation in tissues with eQTL networks.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers, 2 of them syntheses that pooled it.
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Who cites it
62 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Pathway Analysis of Renal Cell Carcinoma Genome-Wide Association Studies Identifies Novel Associations.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2020Pooled it
- Agnostic Pathway/Gene Set Analysis of Genome-Wide Association Data Identifies Associations for Pancreatic Cancer.Journal of the National Cancer Institute · 2019Pooled it
- Commentary on 'corradjust unveils biologically relevant transcriptomic correlations by efficiently eliminating hidden confounders'.Nucleic acids research · 2026Article
- BLOBFISH: bipartite limited subnetworks from multiple observations using breadth-first search with constrained hops.Bioinformatics (Oxford, England) · 2026Article
- Transcriptomic and regulatory landscape of liver tissue associated with meat and carcass quality traits in cattle.Journal of animal science and biotechnology · 2026Article
- Pan-cancer analysis of single-cell profiles with polygenic signals reveals genetic influences on tumor immunity across cancers.Communications biology · 2026Article
- A novel machine learning-based algorithm for eQTL identification reveals complex pleiotropic effects in the MHC region.Briefings in bioinformatics · 2026Article
- Nuclear Myosin 1 links genomic architecture to adipose tissue remodeling, metabolic inflammation and obesity in mice.Cell death & disease · 2026Article
- Retroelements in thyroid cancer: epigenetic plasticity, dedifferentiation, and therapeutic opportunities.Reviews in endocrine & metabolic disorders · 2026Review
- Network construction using sparse Gaussian graphical model based on GWAS summary statistics.Scientific reports · 2025Article
- The Importance of Regulatory Network Structure for Complex Trait Heritability and Evolution.Molecular biology and evolution · 2025Article
- Interpretable AI for inference of causal molecular relationships from omics data.Science advances · 2025Article
- Novel putative causal mutations associated with fat traits in Nellore cattle uncovered by eQTLs located in open chromatin regions.Scientific reports · 2024Article
- Cis-eQTLs in seven duck tissues identify novel candidate genes for growth and carcass traits.BMC genomics · 2024Article
- Epigenome-augmented eQTL-hotspots reveal genome-wide transcriptional programs in 36 human tissues.Briefings in bioinformatics · 2024Article
- The genetic architecture of behavioral canalization.Trends in genetics : TIG · 2023Review
- Single-cell dissection of aggression in honeybee colonies.Nature ecology & evolution · 2023Article
- Connectivity in eQTL networks dictates reproducibility and genomic properties.Cell reports methods · 2022Article
- Predicting genotype-specific gene regulatory networks.Genome research · 2022Article
- Evolutionary rewiring of regulatory networks contributes to phenotypic differences between human and mouse orthologous genes.Nucleic acids research · 2022Article
2 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors.
Funding
Abstract
Characterizing the collective regulatory impact of genetic variants on complex phenotypes is a major challenge in developing a genotype to phenotype map. Using expression quantitative trait locus (eQTL) analyses, we constructed bipartite networks in which edges represent significant associations between genetic variants and gene expression levels and found that the network structure informs regulatory function. We show, in 13 tissues, that these eQTL networks are organized into dense, highly modular communities grouping genes often involved in coherent biological processes. We find communities representing shared processes across tissues, as well as communities associated with tissue-specific processes that coalesce around variants in tissue-specific active chromatin regions. Node centrality is also highly informative, with the global and community hubs differing in regulatory potential and likelihood of being disease associated.
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