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Reference gene expression levels in the K6 cell line appeared to be higher when compared to DH82 cell lines, with most of the K6 CT values being less than 30.
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All the published de novo transcriptome assemblers are optimized for building references for comparing gene expression levels, identifying splice variants, and determining gene fusion events [ 2, 4, 5].
To examine the stability of reference gene expressions, transcript levels were measured by qRT-PCR.
β-Tubulin was used as an internal reference gene, and relative gene expression levels were calculated using the comparative Ct method (Livak and Schmittgen 2001).
β-actin was used as reference gene and relative gene expression levels were determined according to manufacturer's ΔΔCt method (Applied Biosystems).
After three days of incubation, quantitative real-time RT-PCR was performed using glyceraldehyde-3-phosphate dehydrogenase (GAPDH) as reference gene to determine gene expression levels.
The choice of an acceptable level of reference gene expression variability depends on the degree of sensitivity that is demanded for each experiment.
Data are expressed as a ratio of gene expression levels with reference to β-actin.
The ribosomal genes RpS20 and RpL32 were taken as reference genes, against which relative gene expression levels of our genes of interest were normalized.
GAPDH [GenBank: L21903.1] was used as a reference gene for normalization of gene expression levels across samples.
Raw reads data were mapped back to the reference transcriptome for evaluation of gene expression levels and global transcript expression profiling among plant samples with different treatments.
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