ArticleAmerican journal of human genetics2013
Genetic and epigenetic regulation of human lincRNA gene expression.
Article in American journal of human genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed, 68 citations in OpenAlex.
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- Combined population transcriptomic and genomic analysis reveals cis-regulatory differentiation of non-coding RNAs in maize.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
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- The expression of long non-coding RNAs is associated with H3Ac and H3K4me2 changes regulated by the HDA6-LDL1/2 histone modification complex inNAR genomics and bioinformatics · 2020Article
- Longitudinal RNA-Seq Analysis of the Repeatability of Gene Expression and Splicing in Human Platelets Identifies a PlateletCirculation research · 2020Article
- ncRNA-eQTL: a database to systematically evaluate the effects of SNPs on non-coding RNA expression across cancer types.Nucleic acids research · 2020Article
- Predicting lincRNA-Disease Association in Heterogeneous Networks Using Co-regularized Non-negative Matrix Factorization.Frontiers in genetics · 2020Article
- Comprehensive Characterization of Somatic Mutations Impacting lncRNA Expression for Pan-Cancer.Molecular therapy. Nucleic acids · 2019Article
- Lnc2Cancer v2.0: updated database of experimentally supported long non-coding RNAs in human cancers.Nucleic acids research · 2019Article
- Systematic evaluation of C. elegans lincRNAs with CRISPR knockout mutants.Genome biology · 2019Article
- Disease-Associated SNPs in Inflammation-Related lncRNAs.Frontiers in immunology · 2019Review
- Coordinate regulation of long non-coding RNAs and protein-coding genes in germ-free mice.BMC genomics · 2018Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Large intergenic noncoding RNAs (lincRNAs) are still poorly functionally characterized. We analyzed the genetic and epigenetic regulation of human lincRNA expression in the GenCord collection by using three cell types from 195 unrelated European individuals. We detected a considerable number of cis expression quantitative trait loci (cis-eQTLs) and demonstrated that the genetic regulation of lincRNA expression is independent of the regulation of neighboring protein-coding genes. lincRNAs have relatively more cis-eQTLs than do equally expressed protein-coding genes with the same exon number. lincRNA cis-eQTLs are located closer to transcription start sites (TSSs) and their effect sizes are higher than cis-eQTLs found for protein-coding genes, suggesting that lincRNA expression levels are less constrained than that of protein-coding genes. Additionally, lincRNA cis-eQTLs can influence the expression level of nearby protein-coding genes and thus could be considered as QTLs for enhancer activity. Enrichment of expressed lincRNA promoters in enhancer marks provides an additional argument for the involvement of lincRNAs in the regulation of transcription in cis. By investigating the epigenetic regulation of lincRNAs, we observed both positive and negative correlations between DNA methylation and gene expression (expression quantitative trait methylation [eQTMs]), as expected, and found that the landscapes of passive and active roles of DNA methylation in gene regulation are similar to protein-coding genes. However, lincRNA eQTMs are located closer to TSSs than are protein-coding gene eQTMs. These similarities and differences in genetic and epigenetic regulation between lincRNAs and protein-coding genes contribute to the elucidation of potential functions of lincRNAs.
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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.