LD could only be calculated for biallelic copy number variants.
The technical precision of each platform, within the same hybridization experiment or qPCR plate, was also calculated for different copy number levels based on data from duplicate arrays or triplicate qPCR reactions.
CAI scores were calculated for 'single-copy' genes from syntenic, polycistronic gene clusters on three different chromosomes (see table 4 in the additional data file).
Group means with 95% confidence intervals (CI) were then calculated for the relative copy numbers.
For the genomes studied, Kimura distances (K-values; Kimura 1980) were calculated for all TE copies of each element in order to estimate the "age" and transposition history of TEs (fig. 4).
Similarly to the previous period, the number of signal copies and the ratios (HER2/CEP17) were calculated for each probe Gene copies (> 6) or cluster formations (small clusters ~ 6 copies, larger clusters ~ 12 copies) were defined as amplified.
Normalized results were expressed as arbitrary units (a.u ., standing for the ratio of DDC mRNA copies to 1000 GAPDH mRNA copies calculated for each specimen, in relation to the same ratio calculated for Caco-2 cells.
Normalized results were expressed as arbitrary units (a.u ., which stand for the ratio of BΑΧ mRNA copies to 1000 GAPDH mRNA copies, calculated for each nasopharyngeal tissue biopsy, and in relation to the same ratio calculated for HL-60 cells.
Consistent with the very low RNA copy calculated for patient P2 (Figure 1B), less than 10% of the samples analyzed exhibited HCV levels that were significantly above background levels (Figure 3B).
