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Sample GSM1359173 Query DataSets for GSM1359173
Status Public on Jul 21, 2014
Title Control_CT20
Sample type RNA
 
Source name healthy_PBMC
Organism Homo sapiens
Characteristics subject group: Healthy subject
gender: male
age (yrs): 28
bmi (kg/m2): 19.15
cell type: Peripheral blood mononuclear cells (PBMCs)
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with Qiagen RNeasy following the standard protocol, starting from ~10^6 cells
Label SYBR Green
Label protocol Reverse transcription was done with Life Technologies Vilo kit (standard protocol), starting from 150 ng total RNA. Quantitative real-time PCR was done in an 7900HT Real-Time PCR System (Life Technologies/ABI) using primer sets and SYBR Green from Qiagen, in 384-well plates, in a final volume of 5 μL and using default cycling parameters of the standard mode.
 
Hybridization protocol n/a
Scan protocol n/a
Description Healthy subject
Data processing We used Excel capabilities to calculate: (a) the average Cq from duplicate wells for each gene; (b) the median values of the three housekeeping genes (B2M, GAPDH and RPL13); (c) RCN as defined below.
Detections were done in duplicate, and the values in Matrix non-normalized worksheet represent the average Cq of the duplicate per each sample. In the rare cases where one of the duplicates was Undetectable ot the dissociatin curve was not appropriate, we used the remaining sample.
Sample data table reports the normalized signal [2^(-ΔCq)] against the median value of the three housekeeping genes: B2M, GAPDH and RPL13.
In our analyses we used the Relative Copy Number [RCN: 2^(–ΔCq) × 100] (instead of calculating 'Fold change')
 
Submission date Mar 28, 2014
Last update date Jul 21, 2014
Contact name Leni Moldovan
Organization name Indiana University
Department Ophthalmology
Lab M. Grant
Street address 980 W Walnut St., Rm. C422
City Indianapolis
State/province IN
ZIP/Postal code 46202
Country USA
 
Platform ID GPL18487
Series (1)
GSE56327 A PBMC Transcriptional Module Related to Vascular Function

Data table header descriptions
ID_REF
VALUE normalized signal [2^(-ΔCq)]

Data table
ID_REF VALUE
ABCG2 0.03838
ACTA2 0.09581
ADIPOQ 0.06540
ALB 0.05001
ALDH1 0.10747
ALPL 0.01133
BGLAP 0.06103
CAV3 0.02723
CD14 0.80457
CD34 0.03493
CD3E 0.35619
CD68 0.09963
CDH5 0.00036
CNN1 0.00719
COL1A1 0.04482
CX3CR1 0.31857
CXCR4 1.26636
ENO2 0.17348
FSHR 0.02292
GATA4 0.06213

Total number of rows: 47

Table truncated, full table size <1 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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