|
| Status |
Public on Feb 12, 2015 |
| Title |
hfREF14 [set 1] |
| Sample type |
RNA |
| |
|
| 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)
|
| |
|
| 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.
|
| |
|
| 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. |
|
