cDNA array-CGH profiling identifies genomic alterations specific to stage and MYCN-amplification in neuroblastoma

BMC Genomics
Qing-Rong ChenJaved Khan

Abstract

Recurrent non-random genomic alterations are the hallmarks of cancer and the characterization of these imbalances is critical to our understanding of tumorigenesis and cancer progression. We performed array-comparative genomic hybridization (A-CGH) on cDNA microarrays containing 42,000 elements in neuroblastoma (NB). We found that only two chromosomes (2p and 12q) had gene amplifications and all were in the MYCN amplified samples. There were 6 independent non-contiguous amplicons (10.4-69.4 Mb) on chromosome 2, and the largest contiguous region was 1.7 Mb bounded by NAG and an EST (clone: 757451); the smallest region was 27 Kb including an EST (clone: 241343), NCYM, and MYCN. Using a probabilistic approach to identify single copy number changes, we systemically investigated the genomic alterations occurring in Stage 1 and Stage 4 NBs with and without MYCN amplification (stage 1-, 4-, and 4+). We have not found genomic alterations universally present in all (100%) three subgroups of NBs. However we identified both common and unique patterns of genomic imbalance in NB including gain of 7q32, 17q21, 17q23-24 and loss of 3p21 were common to all three categories. Finally we confirm that the most frequent specific changes in Stage 4+...Continue Reading

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Citations

May 28, 2008·Oncogene·J S WeiJ Khan
Jan 27, 2010·Oncogene·W C Gustafson, W A Weiss
Jan 27, 2010·Oncogene·I Janoueix-LeroseyO Delattre
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Methods Mentioned

BETA
cDNA array
transgenic
PCR

Software Mentioned

Xpter
UniGene Cluster
Blat

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