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Two SS patients were indeed found to have higher NKG2D expression on their CD4+ T cells (18.6% and 36.2% respectively) (see below for further analysis) (Figures 4 and 3. NB: Figure 3 depicts indeed one such patient).
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From the remaining 16 primer sets, we obtained an average of 24 different fragments, but these were too short (below 250 bp) for further analysis.
We considered all PSMs having a PEP below 0.01 for further analysis.
Each individual CAIX dataset was divided in two groups above and below median value for further analysis (Additional file 1: Table S1).
Only patients with proven bacterial infection as described below were kept for further analysis, provided they had not received any appropriate antibiotics during the 48 hours prior to the diagnosis of sepsis.
SNPs with a call rate below 80% of the total samples, a MAF below 0.05, and a rate of heterozygosity below 5% were excluded for further analysis.
The three best scoring partners (lowest p-values) below 0.05 were included for further analysis.
Gene sets with p-value below 0.01 were kept for further analysis.
Sequences with E-values below 10-5 were selected for further analysis.
The ACE activity of the dialysate was assayed with the method below, frozen, and used for further analysis.
The SNP call rate was calculated and samples with overall call rates over 99% and LogRdev values below 0.2 were used for further analysis.
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