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The quality and purity of total RNA from each sample was assessed using an Agilent Bioanalyzer 2100 system.
Residual genomic DNA contamination was removed using TURBO DNA- free (Ambion), and the quality of the RNA from each sample was assessed using a BioAnalyzer 2100 (Agilent).
Quality of RNA from each sample was assessed using the RNAnalyzer (Biorad), all with an RNA integrity number > 7, and 500 ng of RNA was converted to cRNA using the Illumina TotalPrep RNA Amplification kit (Ambion).
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Convergence of the Gibbs sampler was assessed using the Gelman-Rubin criterion for parallel runs from a Gibbs sampler [ 31].
Significance of differences in means of paired samples was assessed using paired-sample t-test.
SNP deviations from the Hardy-Weinberg equilibrium (HWE) in control samples were assessed using the standard chi-squared test.
Paired samples were assessed using the paired t-test.
DNA samples from 23 patients were obtained from peripheral blood; sample quality was assessed using Nanodrop and molecular weight was checked by electrophoresis in 0.8% agarose gels.
Using colon CSCs derived from patient samples, Wnt signaling was assessed using a GFP reporter system.
If mean biases differ from zero, was assessed using one-sample t-tests.
Change from baseline was assessed using the Wilcoxon paired-samples test.
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