Methylation data was imported into Partek Genomic Suite 7.0 for analysis.
Microarray data were analyzed using Partek® Genomic Suite 6.6 with RMA normalization and differential gene expression detected with ANOVA.
Partek Genomic Suite software version 6.5 (Partek, St Louis, MO, USA) was used to analyze signal intensities and genotype calls.
Data (.CEL files) were analyzed and statistically filtered using software Partek Genomic Suite 6.4 (Partek Inc., St . Louis MO).
CEL-files were imported into Partek Genomic Suite v6.6 software (Partek Inc., St Louis, MO) for performing robust multichip average normalization including background correction, quantile normalization across all arrays, and median polished summarization based on log transformed expression values.
Data were analysed using the statistical methods available in the Partek® Genomic Suite 6.5 (Partek Incorporated, St Louis, Missouri, USA).
The resulting text files were imported into the Partek Genomic Suite (PGS; St . Louis MO, USA) for preprocessing, normalization, and statistical analysis.
All analyses were performed using the Partek® Genomic Suite software package version 6.3 Beta.
CEL files into Partek Genomic Suite software (Agilent), and data were normalized using the RMA (Robust Multichip Averaging) algorithm.
Raw data have been imported in Partek Genomic Suite 6.4 software (Partek Inc., St . Louis MO), transformed in log2 and normalized by quantile normalization.
CEL files produced by GCOS software for each array were then imported into Partek Genomic Suite and analyzed using the Copy Number Analysis workflow.
