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A phylogenetic tree was generated by the Neighbor-Joining method [19] using the package of programs PHYLIP version 3.67 [20].
The pathway mapping and enrichment analysis of targets were performed as the same as those of CNV genes using the package of GOstats.
The statistical analysis was performed using the package of SPSS 9.0.
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Kaplan-Meier curves for disease-free survival were calculated using the package "survival" of Bioconductor [ 19].
Use the packaging of your new memory module to store the existing, stock 512MB module.
The imputation was performed using the package MICE [ 32] of the R software version 3.0.1.
Raw CEL files were renormalized using the package gcRMA [ 47] of Bioconductor version 2.2[ 48].
We used the package minxent of R (Kapur and Kesavan 1992) to solve this variational problem.
Causal mediation analyses were performed using the "mediation" package of software R 2.14.0.
Statistical analysis was completed using the rmeta package of R software.
Microarray data were normalized by the GC-RMA algorithm using the bioconductor package of R software.
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