ArticlePLoS genetics2009
Expression quantitative trait loci are highly sensitive to cellular differentiation state.
Article in PLoS genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- eQTLs identify regulatory networks and drivers of variation in the individual response to sepsis.Cell genomics · 2024Article
- CLIMB: High-dimensional association detection in large scale genomic data.Nature communications · 2022Article
- ZNF521 Enhances MLL-AF9-Dependent Hematopoietic Stem Cell Transformation in Acute Myeloid Leukemias by Altering the Gene Expression Landscape.International journal of molecular sciences · 2021Article
- Leveraging the cell lineage to predict cell-type specificity of regulatory variation from bulk genomics.Genetics · 2021Article
- Article
- Genetic Architecture of Gene Expression in European and African Americans: An eQTL Mapping Study in GENOA.American journal of human genetics · 2020Article
- Genetic Control of Expression and Splicing in Developing Human Brain Informs Disease Mechanisms.Cell · 2019Article
- Development of a tissue augmented Bayesian model for expression quantitative trait loci analysis.Mathematical biosciences and engineering : MBE · 2019Article
- An empirical Bayes approach for multiple tissue eQTL analysis.Biostatistics (Oxford, England) · 2018Article
- Age-dependent changes in mean and variance of gene expression across tissues in a twin cohort.Human molecular genetics · 2018Article
- Cis-SNPs Set Testing and PrediXcan Analysis for Gene Expression Data using Linear Mixed Models.Scientific reports · 2017Article
- Article
- reGenotyper: Detecting mislabeled samples in genetic data.PloS one · 2017Article
- Adiposity-Dependent Regulatory Effects on Multi-tissue Transcriptomes.American journal of human genetics · 2016Article
- Identification and validation of regulatory SNPs that modulate transcription factor chromatin binding and gene expression in prostate cancer.Oncotarget · 2016Article
- Quantitative trait gene Slit2 positively regulates murine hematopoietic stem cell numbers.Scientific reports · 2016Article
- Temporal expression profiling identifies pathways mediating effect of causal variant on phenotype.PLoS genetics · 2015Article
- The role of regulatory variation in complex traits and disease.Nature reviews. Genetics · 2015Review
- Article
- Joint eQTL assessment of whole blood and dura mater tissue from individuals with Chiari type I malformation.BMC genomics · 2015Article
Corrections and comments
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Authors and funding
11 authors.
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Abstract
Genetical genomics is a strategy for mapping gene expression variation to expression quantitative trait loci (eQTLs). We performed a genetical genomics experiment in four functionally distinct but developmentally closely related hematopoietic cell populations isolated from the BXD panel of recombinant inbred mouse strains. This analysis allowed us to analyze eQTL robustness/sensitivity across different cellular differentiation states. Although we identified a large number (365) of "static" eQTLs that were consistently active in all four cell types, we found a much larger number (1,283) of "dynamic" eQTLs showing cell-type-dependence. Of these, 140, 45, 531, and 295 were preferentially active in stem, progenitor, erythroid, and myeloid cells, respectively. A detailed investigation of those dynamic eQTLs showed that in many cases the eQTL specificity was associated with expression changes in the target gene. We found no evidence for target genes that were regulated by distinct eQTLs in different cell types, suggesting that large-scale changes within functional regulatory networks are uncommon. Our results demonstrate that heritable differences in gene expression are highly sensitive to the developmental stage of the cell population under study. Therefore, future genetical genomics studies should aim at studying multiple well-defined and highly purified cell types in order to construct as comprehensive a picture of the changing functional regulatory relationships as possible.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.