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Series GSE69637 Query DataSets for GSE69637
Status Public on May 18, 2016
Title RNA-seq identifies novel lncRNAs involved in vascular smooth muscle cell proliferation
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary Smooth muscle cell (SMC) phenotypic switching from a contractile to a synthetic state is implicated in diverse vascular pathologies, including neointimal formation. This study was designed to identify lncRNAs that may play a role in vascular pathologies. Primary smooth muscle cells cultured from surplus human saphenous vein tissue were treated with inflammatory and proliferative stimuli, IL1α and PDGF, for 72h and RNA extracted for RNA-sequencing. Using edgeR processed data we found expression of many lncRNAs was altered following treatment and could play a role in vascular disease.
Overall design 4 groups of samples, n= 3/group each replicate using cells cultured from a different venous patient sample. Cells were quiesced in 0.2% serum for 48h followed by addition of 10ng/ml IL1α , 20ng/ml PDGF or both 10ng/ml IL1α and 20ng/ml PDGF together. Cells were collected after 72h and RNA extracted using Qiagen RNeasy kits. RNA-sequencing was carried out by Beckman Coulter Genomics on the r-RNA depleted fraction.
Contributor(s) Dakin R, Baker A, Ballantyne M
Citation(s) 27052414
Submission date Jun 07, 2015
Last update date May 15, 2019
Contact name Rachel Dakin
Phone 01413303301
Organization name University of Glasgow
Department ICAMS
Street address 126 University Place
City Glasgow
ZIP/Postal code G12 8TA
Country United Kingdom
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (16)
GSM1705105 F10-1CON: Control 1
GSM1705106 F8-2CON: control 2
GSM1705107 F6-3CON: control 3
BioProject PRJNA286049
SRA SRP059217

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Supplementary file Size Download File type/resource
GSE69637_10019007.1Control_Group1.cpm.csv.gz 2.2 Mb (ftp)(http) CSV
GSE69637_10019007.1Control_Group1.toptags_edgeR.csv.gz 606.9 Kb (ftp)(http) CSV
GSE69637_10019007.1Control_Group2.cpm.csv.gz 2.2 Mb (ftp)(http) CSV
GSE69637_10019007.1Control_Group2.toptags_edgeR.csv.gz 582.2 Kb (ftp)(http) CSV
GSE69637_10019007.1Control_Group3.cpm.csv.gz 2.2 Mb (ftp)(http) CSV
GSE69637_10019007.1Control_Group3.toptags_edgeR.csv.gz 627.5 Kb (ftp)(http) CSV
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