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Sample GSM1963493 Query DataSets for GSM1963493
Status Public on Jan 24, 2017
Title corneal_endothelium_FECD_A69
Sample type RNA
 
Source name corneal endothelium FECD
Organism Homo sapiens
Characteristics gender: Male
age: 61
tissue: corneal endothelium with Descemet's membrane
group: Fuchs' endothelial corneal dystrophy
inheritance: not known
type of surgery: Descemet's stripping automated endothelial keratoplasty
phakic or pseudophakic: pseudophakic
time between cataract surgery and keratoplasty (in months): 10
Cause of death: n/a
number of cells per mm²: unknown
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 FECD
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 GPL21205
Series (2)
GSE75675 Identification of Circulating Fibrocytes and Dendritic Derivatives in Corneal Endothelium of Patients with Fuchs' Dystrophy [RT-qPCR array CAPH10410]
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 10.19496267
A02 2.578646667
A03 11.30366267
A04 3.651408667
A05 4.165909667
A06 1.498072667
A07 6.500849667
A08 2.536278667
A09 10.16736267
A10 3.308682667
A11 -0.066597333
A12 11.30366267
B01 5.082881667
B02 3.924897667
B03 8.071768667
B04 3.968129667
B05 9.595204667
B06 11.30366267
B07 9.308457667
B08 8.196604667

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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