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SRX2430575: GSM2430385: Psoriatic arthritis; Homo sapiens; RNA-Seq
1 ILLUMINA (Illumina HiSeq 3000) run: 40M spots, 8.1G bases, 4.9Gb downloads

Submitted by: NCBI (GEO)
Study: Expression of long non-coding RNAs in autoimmunity and linkage to enhancer function and autoimmune disease risk genetic variants
show Abstracthide Abstract
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.
Sample: Psoriatic arthritis
SAMN06146230 • SRS1866486 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 3000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: Peripheral whole blood was collected into PaxGene tubes. RNA was isolated per the manufacturer's supplied protocol. Total RNA isolated from PaxGene tubes was purified with the RNeasy MinElute Cleanup kit (Qiagen) using an on-column DNAse treatment to ensure absence of genomic DNA contamination according to the manufacturer's supplied protocol. Libraries were constructed using the Illumina TruSeq Stranded mRNA kit (Cat. No. RS-122-2101) following the manufacturer's supplied protocol.
Experiment attributes:
GEO Accession: GSM2430385
Links:
Runs: 1 run, 40M spots, 8.1G bases, 4.9Gb
Run# of Spots# of BasesSizePublished
SRR511512840,018,4588.1G4.9Gb2017-04-13

ID:
3528736

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