Author: Baldwin, Don A.; Feldman, Michael; Alwine, James C.; Robertson, Erle S.
Title: Metagenomic Assay for Identification of Microbial Pathogens in Tumor Tissues Document date: 2014_9_16
ID: xlqdn0c7_36
Snippet: Partek analysis of variance (ANOVA) tools were used to perform paired t tests with multiple testing correction using all tumor samples as replicates of the test condition and cohybridized xhh DNA replicates as the control condition. Comparisons were performed at the accession level using AccAvg(Cy3) versus AccAvg(Cy5), and at the individual probe level using Cy3 versus Cy5 intensity values. Significance thresholds were set at a step-up false disc.....
Document: Partek analysis of variance (ANOVA) tools were used to perform paired t tests with multiple testing correction using all tumor samples as replicates of the test condition and cohybridized xhh DNA replicates as the control condition. Comparisons were performed at the accession level using AccAvg(Cy3) versus AccAvg(Cy5), and at the individual probe level using Cy3 versus Cy5 intensity values. Significance thresholds were set at a step-up false discovery rate of Ͻ0.05 and fold difference of Ͼ2. An outlier analysis was also performed at accession and probe levels by calculating the standard deviation of AccSig or probe signal across all tumors and filtering for any values that were 2 or more standard deviations higher than the population mean.
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