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Sample GSM1293468 Query DataSets for GSM1293468
Status Public on Feb 12, 2015
Title hfREF8 [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
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.

Data table header descriptions
VALUE quantile normalized

Data table
5SrRNA-3 -110.22
5SrRNA-5 40787.6
Hy3 48817.7
SNORD38B-3 -69.8232
SNORD38B-5 26504.7
SNORD44-3 -145.348
SNORD44-5 8490.81
SNORD48-3 -103.341
SNORD48-5 12922.9
SNORD49A-3 -104.64
SNORD49A-5 8988.45
SNORD66-3 -42.3415
SNORD66-5 -105.598
U6-snRNA-1 4187.2
U6-snRNA-2 22331.3
U6B-3 -69
U6B-5 2629.37
ebv-miR-BART1-3p 66.5122
ebv-miR-BART1-5p -44.2683
ebv-miR-BART10 251.787

Total number of rows: 1392

Table truncated, full table size 31 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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