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Series GSE92472 Query DataSets for GSE92472
Status Public on Apr 11, 2017
Title Expression of long non-coding RNAs in autoimmunity and linkage to enhancer function and autoimmune disease risk genetic variants
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Genome-wide association studies have identified numerous genetic variants conferring autoimmune disease risk. Most of these genetic variants lie outside protein-coding genes hampering mechanistic explorations. Numerous mRNAs are also differentially expressed in autoimmune disease but their regulation is also unclear. The majority of the human genome is transcribed yet its biologic significance is incompletely understood. We performed whole genome RNA-sequencing [RNA-seq] to categorize expression of mRNAs, known and novel long non-coding RNAs [lncRNAs] in leukocytes from subjects with autoimmune disease and identified annotated and novel lncRNAs differentially expressed across multiple disorders. We found that loci transcribing novel lncRNAs were not randomly distributed across the genome but co-localized with leukocyte transcriptional enhancers, especially super-enhancers, and near genetic variants associated with autoimmune disease risk. We propose that alterations in enhancer function, including lncRNA expression, produced by genetics and environment, change cellular phenotypes contributing to disease risk and pathogenesis and represent attractive therapeutic targets.
Overall design We extracted RNA from peripheral whole blood across healthy control and disease subjects.
Contributor(s) Spurlock CF, Aune TM
Citation(s) 28420548
Submission date Dec 15, 2016
Last update date Aug 28, 2019
Contact name Charles F Spurlock III
Phone 6153432363
Organization name Vanderbilt University School of Medicine
Department Medicine
Lab T3113
Street address 1161 21st Avenue South
City Nashville
State/province Tennessee
ZIP/Postal code 37232
Country USA
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (15)
GSM2430372 Ulcerative colitis
GSM2430373 Crohn's disease
GSM2430374 Irritable bowel syndrome
BioProject PRJNA357628
SRA SRP095209

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