Open Access Research article

Multiplex Amplicon Quantification (MAQ), a fast and efficient method for the simultaneous detection of copy number alterations in neuroblastoma

Candy Kumps1, Nadine Van Roy1, Lien Heyrman23, Dirk Goossens23, Jurgen Del-Favero23, Rosa Noguera4, Jo Vandesompele1, Frank Speleman1 and Katleen De Preter1*

Author Affiliations

1 Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium

2 Applied Molecular Genomics Group, Department of Molecular Genetics, VIB, Belgium

3 University of Antwerp (UA), Antwerp, Belgium

4 Department of Pathology, Medical School of Valencia, University of Valencia, Valencia, Spain

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BMC Genomics 2010, 11:298  doi:10.1186/1471-2164-11-298

Published: 12 May 2010

Additional files

Additional file 1:

Patient data on 48 neuroblastoma tumors. Patient data on 48 neuroblastoma tumors including INSS stage, age at diagnosis, MYCN amplification status and survival status.

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Additional file 2:

Overview primer pools of MAQ1 (A), MAQ2 (B) and MAQ3 (C). Overview of primer pools used for MAQ1 (A), MAQ2 (B) and MAQ3 (C) including details of chromosomal location

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Additional file 3:

Scoring table of 48 tumors and 4 cell lines with segmental (A) and numerical (B) aberrations. Scoring table of 31 tumors and 4 cell lines with segmental aberrations (A). Thirty-five tumors display with segmental aberrations. Scoring was performed at the regions of interest at 1p, MYCN amplification (MNA) status, 3p, 11q and 17q. Scoring table of 17 tumors with exclusively numerical aberrations (B). Seventeen tumors display with only numerical aberrations. Scoring was performed at the regions of interest at for both chromosome arms for chromosome 1, 2, 3, 11 and 17. Red indicates clear loss, light red indicates a loss where the threshold is barely reached, light green indicates a gain where the threshold is barely reached, green indicates clear gain. Black indicates that there was no data obtained.

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Additional file 4:

Array CGH results of 48 NB samples and 4 cell lines. Array CGH results of 48 NB samples and 4 cell lines that were profiled on 44 K oligoarray or BAC array

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Additional file 5:

Overview of ROC curves of MLPA and MAQ assays versus array CGH. Overview of ROC curves of MLPA and MAQ assays versus array CGH at 1p, 2p, 3p, 11q and 17q for tumors with segmental and numerical aberrations.

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