Integration of array-based CGH and gene-expression data. (A). Stepwise approach to identification of genes potentially relevant in the development or progression of MF residing in loci with frequent CNA. Transcripts corresponding to genes localized in MCRs (Figure 1B) were identified and extracted using the Ensembl genome browser and cross-referenced with microarray probes. Gene dose effects on expression levels were then statistically evaluated. Genes demonstrating significantly higher expression associated with gain or lower expression associated with loss are summarized in Table 3. (B) Visual illustration of the integration method applied for aCGH and gene-expression data. For 2 exemplary MCRs, with gain on 7q36 and loss on 9p21, heat maps of resident gene-expression patterns were generated. Genes with a CNA-associated expression pattern are indicated with ◀.