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| Status |
Public on Jan 02, 2014 |
| Title |
Tissue-specific RNA-seq in human evoked inflammation identifies novel blood and adipose lincRNA signatures of cardio-metabolic diseases |
| Organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Inappropriate or sustained activation of innate immunity is a pathologic feature of several common cardio-metabolic disorders. Little is known, however, about transcriptomic modulation during inflammatory stress in disease-relevant human tissues. We applied deep RNA sequencing (RNA-seq) during low-dose experimental endotoxemia (LPS) in healthy humans to interrogate, in an unbiased manner, inflammatory tissue-level transcriptome responses of relevance to complex cardio-metabolic diseases. We utilized adipose and blood samples from three individuals who underwent a standardized inpatient endotoxemia protocol. Our comprehensive analysis revealed substantial, highly tissue- and subject-specific LPS-modulated changes in the expression of protein-coding genes and linc-RNAs as well as alternative splicing (AS). We also confirmed adipocytes and macrophages as potential cell sources of selective LPS-modulated linc-RNAs and AS events. Finally, we defined disease relevance of a subset of findings in obese adipose tissue and through interrogation of overlap with genome-wide association study loci for cardio-metabolic traits. Our findings provide novel insights into tissue-level genomic regulation, not detectable through analysis of DNA variations alone, of relevance to common cardio-metabolic diseases.
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| Overall design |
Using RNA-seq data to study LPS-modulated changes in lincRNA expression for adipose and blood of a healthy individual.
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| |
|
| Contributor(s) |
Liu Y, Ferguson J, Xue C, Ballantyne R, Silverman I, Serfecz J, Gosai S, Gregory B, Li M, Reilly M |
| Citation(s) |
24362841, 24504737, 25416278 |
| Submission date |
Sep 11, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Chenyi Xue |
| Organization name |
Columbia University
|
| Street address |
630 W 168th St.
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (8)
|
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| This SubSeries is part of SuperSeries: |
| GSE39118 |
RNA-Seq and expression data from human adipose tissue |
|
| Relations |
| BioProject |
PRJNA218926 |
| SRA |
SRP029899 |
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