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Archived Comments for: Breaking the waves: improved detection of copy number variation from microarray-based comparative genomic hybridization

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  1. Data "waves" in SNP array data

    Kylie Louise Gorringe, Peter MacCallum Cancer Centre

    1 July 2008

    We sometimes observe data "waves" in our Affy SNP array copy number data. It is inconsistent between samples or experimental batches and sometimes a second DNA prep or extra clean-up of the same sample removes the effect. It seems to be more common in whole-genome amplified DNA or DNA from limited sources (eg tumour biopsies). I'd be interested to know if anyone has identified why this occurs or has a solution for analysing tumor data.

    Competing interests

    None declared