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After Bonferonni correction, variation was considered significant with p-values less than 0.006.
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Correction for variation in the plasma concentration of contrast agent has been shown to be an important source of variation between measurements, limiting reproducibility.
The mean nucleotide diversity per contig was 0.019 per base before correction for variation in read depth and 0.024, (range of 0 to 0.163 per contig) after correction.
Ct values generated from each sample with the 18 s specific probe set were used to normalize expression of the two target genes (Il7 and Gapdh) using a ΔCt method with correction for variation in amplification efficiency.
The primer pair used was EcoRI-0[FAM]/MseI-C. GeneScan-500[ROX] internal standard (Applied Biosystems) was co-electrophoresed with each sample in order to allow an accurate calculation of fragment lengths and correction for variation rates and gel distortions.
A linear model was fitted to the data using "lmFit", and "eBayes" provided a correction of variation by borrowing information across genes.
The obtained values were expressed as a percentage of Cld-1 value after correction for variation in the size of amplification product.
It also revealed the deep impact of the correction for variation of affinity between probes using covariates, not implemented in ℳ8.
The 1676 genes with a >2-fold difference in expression, using a FDR threshold of 0.001 and after correction for variation between experiments, are shown in Supplementary Material, Table S3.
In the present study, correction for variation in the number of citations of parasitological studies using Google Scholar citations for each host species provides perhaps the most pragmatic method of control of potentially confounding effect.
Protein Maximum Likelihood (ML) bootstrap support values were calculated using PHYML [ 58] and RAxML [ 59] with the appropriate models of sequence evolution and correction for variation of rates among sites.
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