Please use this identifier to cite or link to this item: http://hdl.handle.net/2381/32743
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dc.contributor.authorAlmlöf, J. C.-
dc.contributor.authorLundmark, P.-
dc.contributor.authorLundmark, A.-
dc.contributor.authorGe, B.-
dc.contributor.authorPastinen, T.-
dc.contributor.authorCardiogenics Consortium-
dc.contributor.authorGoodall, Alison H.-
dc.contributor.authorCambien, F.-
dc.contributor.authorDeloukas, P.-
dc.contributor.authorOuwehand, W. H.-
dc.contributor.authorSyvänen, A. C.-
dc.date.accessioned2015-07-20T11:58:30Z-
dc.date.available2015-07-20T11:58:30Z-
dc.date.issued2014-07-15-
dc.identifier.citationPLoS One, 2014, 9 (7), e102612en
dc.identifier.urihttp://journals.plos.org/plosone/article?id=10.1371/journal.pone.0102612en
dc.identifier.urihttp://hdl.handle.net/2381/32743-
dc.description.abstractWe applied genome-wide allele-specific expression analysis of monocytes from 188 samples. Monocytes were purified from white blood cells of healthy blood donors to detect cis-acting genetic variation that regulates the expression of long non-coding RNAs. We analysed 8929 regions harboring genes for potential long non-coding RNA that were retrieved from data from the ENCODE project. Of these regions, 60% were annotated as intergenic, which implies that they do not overlap with protein-coding genes. Focusing on the intergenic regions, and using stringent analysis of the allele-specific expression data, we detected robust cis-regulatory SNPs in 258 out of 489 informative intergenic regions included in the analysis. The cis-regulatory SNPs that were significantly associated with allele-specific expression of long non-coding RNAs were enriched to enhancer regions marked for active or bivalent, poised chromatin by histone modifications. Out of the lncRNA regions regulated by cis-acting regulatory SNPs, 20% (n = 52) were co-regulated with the closest protein coding gene. We compared the identified cis-regulatory SNPs with those in the catalog of SNPs identified by genome-wide association studies of human diseases and traits. This comparison identified 32 SNPs in loci from genome-wide association studies that displayed a strong association signal with allele-specific expression of non-coding RNAs in monocytes, with p-values ranging from 6.7×10(-7) to 9.5×10(-89). The identified cis-regulatory SNPs are associated with diseases of the immune system, like multiple sclerosis and rheumatoid arthritis.en
dc.language.isoenen
dc.publisherPublic Library of Scienceen
dc.relation.urihttp://www.ncbi.nlm.nih.gov/pubmed/25025429-
dc.rightsCopyright © 2014 Carlsson Almlöf et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.en
dc.subjectLong non-coding RNAsen
dc.subjectGenome-wide association studiesen
dc.subjectGene expressionen
dc.subjectMonocytesen
dc.subjectGene regulationen
dc.subjectGenomic databasesen
dc.subjectComplementary DNAen
dc.subjectRNA extractionen
dc.titleSingle Nucleotide Polymorphisms with Cis-Regulatory Effects on Long Non-Coding Transcripts in Human Primary Monocytesen
dc.typeJournal Articleen
dc.identifier.doi10.1371/journal.pone.0102612-
dc.identifier.eissn1932-6203-
dc.identifier.piiPONE-D-14-07459-
dc.description.statusPeer-revieweden
dc.description.versionPublisher Versionen
dc.type.subtypeJournal Article;Research Support, Non-U.S. Gov't-
pubs.organisational-group/Organisationen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGYen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/School of Medicineen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/School of Medicine/Department of Cardiovascular Sciencesen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/Themesen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/Themes/Cardiovascularen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/Themes/Genome Scienceen
pubs.organisational-group/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/Themes/Molecular & Cellular Bioscienceen
dc.dateaccepted2014-06-20-
Appears in Collections:Published Articles, Dept. of Cardiovascular Sciences

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