|
Status |
Public on Feb 12, 2015 |
Title |
hfREF13 [set 1] |
Sample type |
RNA |
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|
Source name |
patient_hfREF_blood
|
Organism |
Homo sapiens |
Characteristics |
sample group: patients with heart ailment (hfREF) % of left ventricular ejection fraction: reduced left ventricular ejection fraction (hfREF) tissue: peripheral blood molecule subtype: microRNA
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA (plus miRNAs) was isolated using a modification of the RiboPure™-Blood kit from Ambion (Austin,TX) according to the manufacturer’s protocol. The concentration of total RNA and integrity were determined by using Nano-Drop ND-1000 Spectrophotometry (NanoDrop Tech, Rockland, Del) and gel electrophoresis respectively.
|
Label |
Hy3
|
Label protocol |
LNA-modified oligonucleotide (Exiqon) probes for human, mouse and rat miRNAs annotated in miRBase version 12.0, 16.0, 18.0 were used in the microarray. Total RNA (1 μg) was 3’-end –labeled with Cy3 dye using the miRCURY LNA ™ Power Labeling Kit (Exiqon)
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|
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Hybridization protocol |
hybridized on miRCURY LNA™ Arrays, using MAUI® hybridization system
|
Scan protocol |
Chips were scanned on Innopsys Scan 700, microarray scanner at 532 nm
|
Description |
reduced ejection fraction
|
Data processing |
miRNA microarray data were analyzed by subtracting the mean background signal (B532nm) from the test signal (F532nm). All the 3 versions (v12; v16; 6thGEn chips and v18; 7thGen Chips) of Exiqon miRNA microarray probes were matched to the v18 miRNA name. Subsequently the collated data was analysed for further interpretations. Raw signal values in the non-normalised matrix and quantile normalised data in the normalised matrix spread sheet respectively. The quantile normalization of the probes were carried out on PartekÒ Genomics Suite™ 6.6 software.
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|
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Submission date |
Dec 18, 2013 |
Last update date |
Feb 12, 2015 |
Contact name |
Kandiah Jeyaseelan |
E-mail(s) |
erijeya@nus.edu.sg
|
Organization name |
National University of Singapore
|
Department |
Biochemistry
|
Street address |
8 Medical Drive
|
City |
Singapore |
ZIP/Postal code |
117597 |
Country |
Singapore |
|
|
Platform ID |
GPL18067 |
Series (1) |
GSE53437 |
Circulating microRNAs are candidate markers of heart failure and differentiate between heart failure with reduced vs preserved left ventricular ejection fraction. |
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