Search: onr:"22068624" >
Single nucleotide p...
Single nucleotide polymorphisms with cis-regulatory effects on long non-coding transcripts in human primary monocytes
-
Almlöf, Jonas (author)
-
Lundmark, Per (author)
-
Lundmark, Anders (author)
-
show more...
-
Ge, Bing (author)
-
Pastinen, Tomi (author)
-
Goodall, Alison H (author)
-
Cambien, François (author)
-
Deloukas, Panos (author)
-
Ouwehand, Willem H (author)
-
Syvänen, Ann-Christine (author)
-
show less...
-
(publisher)
-
(publisher)
- 2014
- 2014
- English.
-
In: PLoS ONE. - 1932-6203. ; 9:7, e102612
Abstract
Subject headings
Close
- We 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.
Subject headings
- Natural Sciences (hsv)
- Biological Sciences (hsv)
- Genetics (hsv)
- Naturvetenskap (hsv)
- Biologiska vetenskaper (hsv)
- Genetik (hsv)
Find in a library
-
PLoS ONE
(Search for host publication in LIBRIS)
To the university's database
- By the author/editor
-
Almlöf, Jonas
-
Lundmark, Per
-
Lundmark, Anders
-
Ge, Bing
-
Pastinen, Tomi
-
Goodall, Alison ...
-
show more...
-
Cambien, Françoi ...
-
Deloukas, Panos
-
Ouwehand, Willem ...
-
Syvänen, Ann-Chr ...
-
show less...
- By the university
-
Swepub_uni:_t