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Sample GSM8080491 Query DataSets for GSM8080491
Status Public on Feb 17, 2024
Title ccRCC with PC destruction 3
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:
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
VALUE Matrix normalized worksheet reports normalized signal (against housekeeping genes).

Data table
A01 0.095744106
A03 0.009878259
A05 0.077220811
A06 0.009878259
A08 0.009878259
A09 0.009878259
B02 0.091389272
B03 0.114033432
B04 0.026198058
B05 0.009878259
B06 0.009878259
B07 0.009878259
B08 0.009878259

Total number of rows: 96

Table truncated, full table size 1 Kbytes.

Supplementary data files not provided

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