NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1293466 Query DataSets for GSM1293466
Status Public on Feb 12, 2015
Title hfREF6 [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.

Data table header descriptions
ID_REF
VALUE quantile normalized

Data table
ID_REF VALUE
5SrRNA-3 -138.348
5SrRNA-5 63446.3
Hy3 64549.3
SNORD38B-3 -35.5671
SNORD38B-5 43538.4
SNORD44-3 -101.878
SNORD44-5 9729.57
SNORD48-3 -122.561
SNORD48-5 9876.37
SNORD49A-3 -118.494
SNORD49A-5 8262.7
SNORD66-3 -34.6159
SNORD66-5 -62.4634
U6-snRNA-1 7095.29
U6-snRNA-2 53292.9
U6B-3 -153.78
U6B-5 3255.73
ebv-miR-BART1-3p -75.0366
ebv-miR-BART1-5p -63.0671
ebv-miR-BART10 28.128

Total number of rows: 1392

Table truncated, full table size 31 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap