Additional file 4.

Differentially expressed genes (DEGs) mapping in aberrant chromosomal regions. For each gene (reported as Entrez Gene ID, Gene symbol and Gene name), genomic position (in terms of chromosome, cytoband and start and end positions) and type of DNA alteration (labelled as CN gain, CN loss, LOH+CN loss and LOH+CN neutral) occurring in the corresponding region are shown, in addition to the fold change (FC) value calculated by SAM analysis. "CNA/FC concordance" flag indicates the concordant direction between DNA aberration type and differential gene expression level, i.e. the concomitant occurrence of DNA gain events and up-regulated transcriptional levels (concordant UP) or of DNA loss events and down-modulated transcriptional levels (concordant DOWN) of genes located within. Lastly, for each tumor sample (K) and normal control (C), array fluorescent signal intensities of each listed gene converted into RMA expression values are shown.

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Cifola et al. Molecular Cancer 2008 7:6   doi:10.1186/1476-4598-7-6