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The few existing candidate gene studies in PTSD have been limited by methodological problems including convenience samples, focus on chronic rather than lifetime PTSD cases, inadequate power, poorly matched controls and the failure to assay all common variation in genes examined.
This could be due to (1) the inherent inefficiency of acetylation both in vitro and in vivo, resulting in only a small subset of cohesin being acetylated, (2) the inability of glutamine substitutions of K112 and K113 in Smc3 to mimic the acetylated state, (3) the failure to assay cohesin ATPase activity on DNA.
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Another sample was excluded due to assay failure.
Nine SNPs did not pass quality control due to assay failure or inconsistent PCR amplification.
Due to assay failure, we genotyped rs12519145 as a surrogate for the FGFR4 rs1966265 (r2 = 0.8).
Estimates were similar when limited to those samples that were not rerun due to assay failure (data not shown).
A total of 384 SNPs with a good Illumina score (≥ 0.5) were genotyped using a GoldenGate assay (Illumina, San Diego, CA, USA); 28 SNPs were excluded due to assay failure.
All remaining tissue samples underwent C2P analysis, 12 cases were excluded due to assay failure, or CDK expression level below detection threshold (n=3).
Twelve cases were excluded due to assay failure, and in three cases the CDK expression levels were below the detection threshold.
* Among post-menopausal women only aNumbers of cases and controls genotyped for each SNP vary due to assay failure; bunadjusted logistic regression, conditional on matching factors and cohort as described in text; ctest for trend for log-additive or codominant model; dtest for heterogeneity in ORs across cohorts.
The lower number with glucose-insulin data was due to a failure to obtain insulin assay reagent in time for the last batch of assays (n=48), and that for arterial stiffness data was due to an inability to complete all assessments during the course of a clinic day, as most villages lacked the continuous electricity supply needed to run the apparatus.
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