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Iq5 2.1 standard edition optical system software

Manufactured by Bio-Rad

The IQ5 2.1 Standard Edition Optical System Software is a software suite designed to control and analyze data from Bio-Rad's real-time PCR instruments. The software provides a user-friendly interface for setting up and running experiments, as well as analyzing the resulting data.

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2 protocols using iq5 2.1 standard edition optical system software

1

Quantitative Analysis of Differentiation

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The changes in mRNA levels were analyzed using the Bio-Rad iQ5 2.1 Standard Edition Optical System Software. Undifferentiated cells (day 0) were used as a calibrator, and mean Ct values for the target genes were normalized against the PPIA housekeeping gene. The results obtained from the quantitative real-time PCR experiments were calculated using the 2-ΔΔCt method. The intensity of the protein bands obtained from the western blot experiments was quantitated using ImageJ (1.48 version). The results were compared to undifferentiated cells and glyceraldehyde 3-phosphate dehydrogenase (GAPDH) was used as a loading control.
The changes in gene expression and protein amounts were statistically analyzed with the non-parametric Kruskal-Wallis test, using the GraphPad Prism (6.01) software. Values p < 0.05 were considered significant. The time points of differentiation (days 3, 5, 7) were compared to the undifferentiated state (day 0) with Dunn’s multiple comparison test. Graphics were drawn with mean values using the GraphPad Prism (6.01) software with error bars equivalent to the standard error of the mean (SEM).
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2

Quantitative miRNA Expression Analysis

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For qRT-PCR, the total RNA was reverse transcribed to complementary DNA by using the TaqMan miRNA RT Kit and stem-loop RT primers (Applied Biosystems, USA). The quantitative detection of miRNA was performed using the TaqMan PCR kit as implemented in the ABI 7900 Real-Time PCR System (Applied Biosystems, USA). The reactions were initiated with a 384-well optical plate at 95° for 5 min, followed by 40 cycles of 95° for 15 s and 60° for 1 min [30] . Equal amount of tumor tissue and adjacent non-tumor tissue was assigned in each plate and the expression levels of target miRNAs and internal control miRNA (RNU43) were measured simultaneously. All reactions were performed in triplicate. The relative expression levels of target miRNAs were calculated with 2 -ΔΔCT , where CT means cycle threshold and its values were obtained from Bio-Rad iQ5 2.1 Standard Edition Optical System Software.
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