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T.N.T. created and analyzed the CNV call set, analyzed SNP microarray data, performed statistical analyses for SNV and CNV quality control, and examined epidemiological features for the full data set.
Computational and statistical analysis of microarray data performed out using the Linear Mode for Microarray Analysis (LIMMA) software [50].
Furthermore, using this unprecedented collection of TS we built the first synthetic transcriptional map of all human microarray data performed on Affymetrix HG-U133A platform and currently available in the GEO database.
MP and SFN analyzed the microarray data, performed the statistical analysis, and drafted the manuscript.
CH analyzed the microarray data, performed the bioinformatic analyses, and participated in the writing of the manuscript.
HP conceived the project, designed the study, analyzed the microarray data, performed statistical analysis and drafted the manuscript.
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We initially used a relatively low stringency screen of the resulting microarray data, performing an unpaired t-test, P<0.05, finding a total of 267 probesets with greater than 1.5 fold change in expression (Supplemental Data S10).
JE performed and directed experiments, analyzed microarray data, and performed database analyses.
Analysis of microarray data was performed with the R package limma43.
To further confirm the microarray data, we performed real-time PCR analysis.
Clustering of the microarray data was performed using the bioinformatics software program Genesis [68].
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