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Microarray-based comparative genomic hybridization (array-CGH) has demonstrated the role of subtle genomic imbalances in the occurrence of genetic disorders (1). Novel array-CGH modifications were introduced to detect smaller aberrations by varying the type and density of arrayed target sequences (2). At the same time, certain limitations have become obvious (3), increasing the need for alternative methodologies. Array-based multiplex amplifiable probe hybridization (array-MAPH) is a recent approach, where the final quantification of copy-number data is performed by rehybridization to microarrays containing DNA sequences, identical to MAPH probes (4–6). The aim of this study was to estimate whether a probe set, initially developed for array-MAPH, is potentially useful for other methodological applications, such as array-CGH. The same probe set was applied to compare the performance of array-CGH and array-MAPH and to further evaluate the perspectives of arrayMAPH methodology to be used for genome-wide identification of locus copy-number changes. MAPH microarrays were prepared, followed by hybridizations and analyses, as described previously (5). Probe sequences for array-CGH were amplified from the same clone library using a common vectorderived set of primers. Quality control was carried out by visualization of amplification products on agarose gel and retaining only the ones that appear as single

clinical chemistry and laboratory medicine

Application of two different microarray-based copy-number detection methodologies – array-comparative genomic hybridization and array-multiplex amplifiable probe hybridization – with identical amplifiable target sequences