The mean allelic transcript ratio for the whole assay was then calculated, and normalised to the mean allelic transcript ratio for the genomic controls.
However, in these cell lines variation in the rs16965628 SNP was associated with considerably more transcriptional variation than the 5-HTTLPR polymorphism, and the rs16965628 C-allele was linked with increased transcription (the mean allele G/C transcript ratio was 0.47) [ 50].
Daniel et al. [ 24] compared Beclin 1 mRNA expression in HCC with adjacent non-tumor tissues and found similar mean transcript levels, although the ratio of the Beclin 1 mRNA expression in the tumor/non-tumor tissue varied considerably between different patients.
Heat maps were generated using ratios of mean transcript levels in 3-day, 8-day and 15-day knockdowns relative to no knockdown and masking these ratios onto KEGG pathway gene sets for protein and nucleic acid biosynthetic pathways.
Bars represent the log2 values of the ratio of the mean transcript levels for inoculated vs. non-inoculated plants from two technical replicates.
Recombinant mRNA levels were calculated as a relative ratio of the actin mRNA levels as described in equation 4 (Ravg = Relative transcript ratio, E = Mean primer efficiency (1.81 for HsAQP5/Act primers and 1.80 for AtSIP1 1/Act primers), Ct = Critical take off cycle; A = HsAQP5 or AtSIP1 1; B = Act).
Remaining columns: ratios of geometric mean transcript abundances of MFS affected vs unaffected control for three subject groups, and Wilcoxon p values for the null hypothesis of no between group differences.
The mean transcript length is 564 nucleotides.
This ratio is termed the transcript ratio (see Materials and Methods for details).
The mean transcript length, maximum transcript length, and N50 size of Trinity transcripts were 1112, 22,887, and 1863, respectively.
