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Sample GSM8080490 Query DataSets for GSM8080490
Status Public on Feb 17, 2024
Title ccRCC with PC destruction 2
Sample type RNA
 
Source name renal cell carcinoma
Organism Rattus norvegicus
Characteristics sample type: i-Cap 2-3 (PC destruction)
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with miRneasy FFPE (QIAGEN, Venlo, Netherland)Kit followed by DNase I treatment.
Label SYBR Green
Label protocol PCR assays were performed using RT2 Profiler PCR Array (QIAGEN,Venlo, Netherland) , Rat Extracellular Matrix & Adhesion Molecules <PARN-013-ZD> , following the Manufacturer’s instructions. Reverse transcription was performed from 500 ng total RNA using the RT2 First Strand Kit (QIAGEN, Venlo, Netherland). Quantitative real-time PCR were performed (Light Cycler 480, Roche) 40 cycles of denaturation at 95˚C for 15 s; annealing and a final extension at 60˚C for 1 min.
 
Hybridization protocol n/a
Scan protocol n/a
Description Test
Data processing The normalization and all the data analysis were performed according to the manufacturers instructions using their web-based software package: http://sabiosciences.com/pcrarraydataanalysis.php
For the normalization it uses the average of five housekeeping genes: ACTB, B2M, HPRT1, LDHA, RPL1
Target gene signals normalized to housekeeping genes; 2^-deltaCt, where deltaCt = (Ct_Target − Ct_HKG)]
The web-based software package automatically performs all deltadeltaCt based fold-change calculations from the uploaded raw threshold cycle data.
Fold Change worksheet reports test group average/control group average(i.e., i-Cap2-3/i-Cap1) ratios.
 
Submission date Feb 14, 2024
Last update date Feb 17, 2024
Contact name Takuto Shimizu
Organization name Nara Medical University
Department Department of Urology
Street address 840 Shijo-cho
City Kashihara
State/province Nara
ZIP/Postal code 6348522
Country Japan
 
Platform ID GPL34194
Series (1)
GSE255816 Real-time quantitative PCR analysis of ccRCC model rats

Data table header descriptions
ID_REF
VALUE Matrix normalized worksheet reports normalized signal (against housekeeping genes).

Data table
ID_REF VALUE
A01 0.134989469
A02
A03
A04
A05 0.121928731
A06
A07
A08
A09
A10
A11
A12
B01
B02 0.651557824
B03 0.121928731
B04 0.121928731
B05 0.121928731
B06
B07
B08

Total number of rows: 96

Table truncated, full table size <1 Kbytes.




Supplementary data files not provided

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