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Pan et al. identified genes with similar expression profile by using modified Pearson correlation coefficient formula, where a tested gene is compared with a template gene expression profile.
Examination of the expression profiles of the most significantly correlated genes revealed that in many cases, rather than showing a precise relationship to the template, gene expression showed a steep change during early development, plateauing during the late adolescent period, with only subtle changes thereafter.
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qRT-PCR of the house keeping gene, β-actin was also performed for each cDNA template and gene expression normalised to β-actin.
Real-time PCR was performed in the presence of 1.25 μL of cDNA template, TaqMan® gene expression master mix and commercially available TaqMan® gene expression assays.
The demand for the identification of user-defined templates of gene expression profiles increases with the availability of large-scale gene expression data when microarray or proteomic experiments cover whole cell cycles or other time evolving processes.
In this study, DNA vectors capable of promoting the synthesis of long hairpin dsRNAs in vivo from a DNA template to suppress gene expression in insect cells have been successfully constructed.
The PCR mix contained a first-strand cDNA template, primers (TaqMan gene expression assays; Applied Biosystems), and PCR Master Mix Applied Biosystemss).
Semi-quantitative PCR was performed using cDNA (10 ng total RNA) as template and TaqMan Gene Expression Assays and TaqMan Universal PCR Master Mix, No AmpErase UNG in an ABI7500Fast PCR machine (Life Technologies).
Following RNeasy purification of NK cell lysates from the immobilized IgG assay, 2 μg of total RNA was reverse transcribed and the resulting cDNA was used as a template to measure gene expression by Real-Time PCR using pre-designed primer/probe sets (Assays On Demand; Applied Biosystems, Foster City, CA) according to the manufacturer's recommendations, as previously described [ 18].
The final transcriptome assembly provides a high quality template for global gene expression profiling in this study and also provides a valuable tool for wider research on brown trout, which is an ecologically and economically important fish species with limited existing genomic resources.
Complementary DNA samples were used as templates to examine gene expression.
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