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Sample GSM1963489 Query DataSets for GSM1963489
Status Public on Jan 24, 2017
Title corneal_endothelium_control_A12
Sample type RNA
 
Source name corneal endothelium control
Organism Homo sapiens
Characteristics gender: Male
age: 47
tissue: corneal endothelium with Descemet's membrane
group: donor cornea as normal control
phakic or pseudophakic: unknown
Cause of death: trauma
number of cells per mm²: 2200
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 7.903828667
A02 10.88248567
A03 3.426092667
A04 6.934727667
A05 10.10211267
A06 2.710547667
A07 6.167188667
A08 12.31892867
A09 6.086760667
A10 12.12624467
A11 6.721368667
A12 8.154116667
B01 12.31892867
B02 11.59619267
B03 6.274586667
B04 11.31983667
B05 12.31892867
B06 12.31892867
B07 10.94262367
B08 2.108658667

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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