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ArrayCGH-based classification of neuroblastoma into genomic subgroups

(2007) GENES CHROMOSOMES & CANCER. 46(12). p.1098-1108
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Abstract
High-resolution array comparative genomic hybridization (arrayCGH) profiling was performed on 75 primary tumors and 29 cell lines to gain further insight into the genetic heterogeneity of neuroblastoma and to refine genomic subclassification. Using a novel data-mining strategy, three major and two minor genomic subclasses were delineated. Eighty-three percent of tumors could be assigned to the three major genomic subclasses, corresponding to the three known clinically and biologically relevant subsets in neuroblastoma. The remaining subclasses represented (1) tumors with no/few copy number alterations or an atypical pattern of aberrations and (2) tumors with 11 q 13 amplification. Inspection of individual arrayCGH profiles showed that recurrent genomic imbalances were not exclusively associated with a specific subclass. Of particular notice were tumors with numerical imbalances typically observed in subtype I neuroblastoma, in association with genomic features of subtype 2A or 2B. A search for prognostically relevant genomic alterations disclosed I q gain as a predictive marker for therapy failure within the group of subtype 2A and 213 tumors. In cell lines, a high incidence of 6q loss was observed, with a 3.87-5.32 Mb region of common loss within 6q25.1-6q25.2. Our study clearly illustrates the importance of genomic profiling in relation to tumor behavior in neuroblastoma. We propose that genome-wide assessment of copy number alterations should ideally be included in the genetic workup of neuroblastoma. Further multicentric studies on large tumor series are warranted in order to improve therapeutic stratification in conjunction with other features such as age at diagnosis, tumor stage, and gene expression signatures.
Keywords
MYCN-AMPLIFICATION, CELLS, TUMORS, DELETION, 11Q, GENE, STAGE, N-MYC, COPY NUMBER, CGH ANALYSIS

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Chicago
Michels, Evi, Jo Vandesompele, Katleen De Preter, Jasmien Hoebeeck, Joëlle Vermeulen, Alexander Schramm, Jan J Molenaar, et al. 2007. “ArrayCGH-based Classification of Neuroblastoma into Genomic Subgroups.” Genes Chromosomes & Cancer 46 (12): 1098–1108.
APA
Michels, E., Vandesompele, J., De Preter, K., Hoebeeck, J., Vermeulen, J., Schramm, A., Molenaar, J. J., et al. (2007). ArrayCGH-based classification of neuroblastoma into genomic subgroups. GENES CHROMOSOMES & CANCER, 46(12), 1098–1108.
Vancouver
1.
Michels E, Vandesompele J, De Preter K, Hoebeeck J, Vermeulen J, Schramm A, et al. ArrayCGH-based classification of neuroblastoma into genomic subgroups. GENES CHROMOSOMES & CANCER. 2007;46(12):1098–108.
MLA
Michels, Evi, Jo Vandesompele, Katleen De Preter, et al. “ArrayCGH-based Classification of Neuroblastoma into Genomic Subgroups.” GENES CHROMOSOMES & CANCER 46.12 (2007): 1098–1108. Print.
@article{388808,
  abstract     = {High-resolution array comparative genomic hybridization (arrayCGH) profiling was performed on 75 primary tumors and 29 cell lines to gain further insight into the genetic heterogeneity of neuroblastoma and to refine genomic subclassification. Using a novel data-mining strategy, three major and two minor genomic subclasses were delineated. Eighty-three percent of tumors could be assigned to the three major genomic subclasses, corresponding to the three known clinically and biologically relevant subsets in neuroblastoma. The remaining subclasses represented (1) tumors with no/few copy number alterations or an atypical pattern of aberrations and (2) tumors with 11 q 13 amplification. Inspection of individual arrayCGH profiles showed that recurrent genomic imbalances were not exclusively associated with a specific subclass. Of particular notice were tumors with numerical imbalances typically observed in subtype I neuroblastoma, in association with genomic features of subtype 2A or 2B. A search for prognostically relevant genomic alterations disclosed I q gain as a predictive marker for therapy failure within the group of subtype 2A and 213 tumors. In cell lines, a high incidence of 6q loss was observed, with a 3.87-5.32 Mb region of common loss within 6q25.1-6q25.2. Our study clearly illustrates the importance of genomic profiling in relation to tumor behavior in neuroblastoma. We propose that genome-wide assessment of copy number alterations should ideally be included in the genetic workup of neuroblastoma. Further multicentric studies on large tumor series are warranted in order to improve therapeutic stratification in conjunction with other features such as age at diagnosis, tumor stage, and gene expression signatures.},
  author       = {Michels, Evi and Vandesompele, Jo and De Preter, Katleen and Hoebeeck, Jasmien and Vermeulen, Jo{\"e}lle and Schramm, Alexander and Molenaar, Jan J and Menten, Bj{\"o}rn and Marques, Barbara and Stallings, Raymond L and Combaret, Val{\'e}rie and Devalck, Christine and De Paepe, Anne and Versteeg, Rogier and Eggert, Angelika and Laureys, Genevieve and Van Roy, Nadine and Speleman, Franki},
  issn         = {1045-2257},
  journal      = {GENES CHROMOSOMES \& CANCER},
  language     = {eng},
  number       = {12},
  pages        = {1098--1108},
  title        = {ArrayCGH-based classification of neuroblastoma into genomic subgroups},
  url          = {http://dx.doi.org/10.1002/gcc.20496},
  volume       = {46},
  year         = {2007},
}

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