Preferential Occurrence of Chromosome Breakpoints within Early Replicating Regions in Neuroblastoma

Janoueix‐Lerosey, Isabelle; Hupé, Philippe; Maciorowski, Zofia; Rosa, Philippe La; Schleiermacher, Gudrun; Pierron, Gaëlle; Liva, Stéphane; Barillot, Emmanuel; Delattre, Olivier

doi:10.4161/cc.4.12.2257

Cited by 33 publications

(30 citation statements)

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“…They used human lymphoblastoid cells and found a positive correlation between replication timing and various genome parameters, including GC content, gene density and transcriptional activity. Janoueix- Lerosey et al (2005) also assessed the replication timing pattern of seven neuroblastoma cell lines and obtained similar results. They also found that the breakpoint frequency in 28 neuroblastoma cell lines was higher in early replicated regions than elsewhere.…”

Section: Data Contentmentioning

confidence: 73%

“…Moreover, the results of two replication timing studies are provided. It may be interesting to compare breakpoint locations with replication timing pattern, as it has been suggested that chromosome breakpoints occur preferentially within early replicating regions (evidence to support this hypothesis has been obtained for neuroblastoma (Janoueix-Lerosey et al, 2005)). The annotation data are detailed below:…”

Section: Data Contentmentioning

confidence: 99%

“…Outliers are also detected and correspond to probes with a signal value significantly different from the region in which they lie. The GLAD algorithm was also used to analyse the replication timing experiments, but with other parameters, as described by Janoueix- Lerosey et al (2005).…”

Section: Data Contentmentioning

confidence: 99%

“…The website is powered by an Apache server. Blaveri et al (2005) 92.9 Bredel et al (2005) 91.7 Gysin et al (2005) 92.6 Janoueix- Lerosey et al (2005) 97.4 Mosse et al (2005) 61.7 Patil et al (2005) 92.8 Snijders et al (2005) 93.2 de Leeuw et al (2004) 71.5 Douglas et al (2004) 99.3 Nakao et al (2004) 93.0 Woodfine et al (2004) 99.8 Veltman et al (2003) 74.2 Chen et al (2002) 83.8 Pollack et al (2002) 88.5 Snijders et al (2001) 89 …”

Section: Hardware Requirements and Implementationmentioning

confidence: 99%

“…Many studies have been carried out on bladder cancer (Veltman et al, 2003;Blaveri et al, 2005;Stransky et al, 2006), brain cancer (Bredel et al, 2005;Kotliarov et al, 2006), breast cancer (Pollack et al, 2002;Fridlyand et al, 2006), colon cancer (Douglas et al, 2004;Nakao et al, 2004), liver cancer (Patil et al, 2005), lymphoma (de Leeuw et al, 2004), neuroblastoma (JanoueixLerosey et al, 2005;Mosse et al, 2005), mouth cancer (Snijders et al, 2005), pancreas cancer (Gysin et al, 2005) and replication timing (Woodfine et al, 2004;Janoueix-Lerosey et al, 2005). Comparisons of the results of experiments from different laboratories, on different types of cancer, are required to validate results or hypotheses and to improve our understanding of the recurrent alterations involved in cancer.…”

Section: Introductionmentioning

confidence: 99%

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Section: Data Contentmentioning

confidence: 73%

Section: Data Contentmentioning

confidence: 99%

Section: Data Contentmentioning

confidence: 99%

Section: Hardware Requirements and Implementationmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Characterization of amplicons in neuroblastoma: High‐resolution mapping using DNA microarrays, relationship with outcome, and identification of overexpressed genes

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et al. 2008

Genes Chromosomes & Cancer

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Somatically acquired chromosomal imbalances are a key feature of neuroblastoma, a heterogeneous pediatric solid tumor. Among these alterations, genomic amplification targeting the MYCN oncogene and observed in about 25-30% of the cases, strongly correlates with advanced stage and poor outcome. In this work, we have used BAC and SNP arrays as well as gene expression arrays to characterize amplifications in neuroblastoma. Eighty-eight distinct BACs defining high-level amplification events were identified in 65 samples, including 43 tumors and 22 cell lines. Although the highest recurrence was observed on chromosome 2, clones on chromosomes 8, 12, 16, and 17 also revealed genomic amplification in several samples. A detailed analysis of the 2p22-2p25 MYCN containing region indicated highly complex patterns in a number of cases. Coamplifications involving MYCN and other regions were explored by FISH in three cell lines. High-resolution arrays then allowed us to further refine the mapping of 25 amplicons in 19 samples, either reducing the size of a single continuous amplicon or increasing the complexity by highlighting multiple noncontiguous regions of amplification. Combined analysis of gene expression profiling and array-CGH data indicated that 12 to 25% of the genes that are targeted by genomic amplification are actually over-expressed in tumor cells, several of them having already been implicated in cancer. Finally, our results suggest that the presence of amplicons localized outside of chromosome 2, in addition to MYCN amplification, may be linked to a particularly severe outcome in neuroblastoma patients.

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Neuroblastoma and Related Tumors

The Genetics and Molecular Biology of Neural Tumors

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Preferential Occurrence of Chromosome Breakpoints within Early Replicating Regions in Neuroblastoma

Cited by 33 publications

References 24 publications

ACTuDB, a new database for the integrated analysis of array-CGH and clinical data for tumors

ACTuDB, a new database for the integrated analysis of array-CGH and clinical data for tumors

Characterization of amplicons in neuroblastoma: High‐resolution mapping using DNA microarrays, relationship with outcome, and identification of overexpressed genes

Neuroblastoma and Related Tumors

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