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Sample GSM1963486 Query DataSets for GSM1963486
Status Public on Jan 24, 2017
Title corneal_endothelium_control_A70
Sample type RNA
 
Source name corneal endothelium control
Organism Homo sapiens
Characteristics gender: Male
age: 61
tissue: corneal endothelium with Descemet's membrane
group: donor cornea as normal control
phakic or pseudophakic: unknown
Cause of death: acute myocardial infarction
number of cells per mm²: 2600
Extracted molecule total RNA
Extraction protocol The samples were collected in RNAlater. Tissues were disrupted and homogenized manually with a Disposable Pestle (VWRTM International, Radnor, Pennsylvania). RNA extraction was performed with RNeasy® Micro Kit (Qiagen, Hilden, Germany), without DNase treatment.
Label SYBR Green
Label protocol PCR assays were performed using two complementary Custom RT² Profiler PCR Arrays (CAPH10409 and CAPH104010, Qiagen) following the manufacturer's instructions. Reverse transcription was performed from 100 ng of total RNA per sample for each 96-well plate, using the RT² First Strand Kit (Qiagen). Quantitative real-time PCR was performed (7900 HT Fast Real-Time PCR System; Applied Biosystems, Carlsbad, California) with 40 cycles at 95°C for 15 seconds and 60°C for 60 seconds, using RT² SYBR Green ROX qPCR Mastermix (Qiagen).
 
Hybridization protocol n/a
Scan protocol n/a
Description Control
total RNA (> 200 nucleotides)
Data processing Data analysis was done through the web portal of Qiagen, according to the manufacturers instructions: http://qiagen.com/geneglobe. The web-based software automatically performed all ΔΔCt based fold-change calculations from the uploaded raw threshold cycle data. For normalization it used the average arithmetic mean of Ct values from three reference genes: RPL13A, RPL19 and RPS5. To calculate p-values it used a two-sided t-statistic. Sample table reports normalized signal (against housekeeping genes). Fold Change file reports FECD/Control ratios.
 
Submission date Dec 03, 2015
Last update date Jan 24, 2017
Contact name Joost J van den Oord
E-mail(s) joost.vandenoord@med.kuleuven.be
Phone +32 16 33 65 91
Organization name KU Leuven
Department Department of Imaging & Pathology
Lab Translational Cell & Tissue Research
Street address Minderbroedersstraat 12, block q, box 1032
City Leuven
ZIP/Postal code 3000
Country Belgium
 
Platform ID GPL21204
Series (2)
GSE75674 Identification of Circulating Fibrocytes and Dendritic Derivatives in Corneal Endothelium of Patients with Fuchs' Dystrophy [RT-qPCR array CAPH10409]
GSE75676 Identification of Circulating Fibrocytes and Dendritic Derivatives in Corneal Endothelium of Patients with Fuchs' Dystrophy

Data table header descriptions
ID_REF
VALUE normalized signal

Data table
ID_REF VALUE
A01 8.617508667
A02 9.885659667
A03 3.916105667
A04 7.777664667
A05 9.725699667
A06 3.210163667
A07 8.595029667
A08 10.52631467
A09 8.127079667
A10 12.24169967
A11 6.964254667
A12 9.099888667
B01 12.24169967
B02 11.08999967
B03 7.351347667
B04 10.44529367
B05 10.34327967
B06 10.47963367
B07 10.41466567
B08 3.111757667

Total number of rows: 96

Table truncated, full table size 1 Kbytes.




Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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