ArticleNeoplasia (New York, N.Y.)
Chromosomal localization of DNA amplifications in neuroblastoma tumors using cDNA microarray comparative genomic hybridization.
Article in Neoplasia (New York, N.Y.). The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
35 citing papers in PubMed.
- Selective targeting of genome amplifications and repeat elements by CRISPR-Cas9 nickases to promote cancer cell death.Nature communications · 2025Article
- Neuroblastoma GD2 Expression and Computational Analysis of Aptamer-Based Bioaffinity Targeting.International journal of molecular sciences · 2021Review
- Control of gene expression through the nonsense-mediated RNA decay pathway.Cell & bioscience · 2017Review
- Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression.PLoS computational biology · 2016Article
- A novel approach to DNA copy number data segmentation.Journal of bioinformatics and computational biology · 2011Article
- Differences in the properties and mirna expression profiles between side populations from hepatic cancer cells and normal liver cells.PloS one · 2011Article
- Gene amplification as double minutes or homogeneously staining regions in solid tumors: origin and structure.Genome research · 2010Article
- Array-based gene expression, CGH and tissue data defines a 12q24 gain in neuroblastic tumors with prognostic implication.BMC cancer · 2010Article
- Changes in brain MicroRNAs contribute to cholinergic stress reactions.Journal of molecular neuroscience : MN · 2010Article
- Establishment of a new human osteosarcoma cell line, UTOS-1: cytogenetic characterization by array comparative genomic hybridization.Journal of experimental & clinical cancer research : CR · 2009Article
- MSB: a mean-shift-based approach for the analysis of structural variation in the genome.Genome research · 2009Article
- Array CGH data modeling and smoothing in Stationary Wavelet Packet Transform domain.BMC genomics · 2008Article
- Genes proximal and distal to MYCN are highly expressed in human neuroblastoma as visualized by comparative expressed sequence hybridization.The American journal of pathology · 2008Article
- Genomic alterations in sporadic synchronous primary breast cancer using array and metaphase comparative genomic hybridization.Neoplasia (New York, N.Y.) · 2007Article
- An approach to the validation of novel molecular markers of breast cancer via TMA-based FISH scanning.Journal of molecular histology · 2007Article
- Malignant and benign ganglioglioma: a pathological and molecular study.Neuro-oncology · 2007Article
- Relationship of DDX1 and NAG gene amplification/overexpression to the prognosis of patients with MYCN-amplified neuroblastoma.Journal of cancer research and clinical oncology · 2007Article
- Computational methods for the analysis of array comparative genomic hybridization.Cancer informatics · 2007Article
- Article
- Exploiting noise in array CGH data to improve detection of DNA copy number change.Nucleic acids research · 2007Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Conventional comparative genomic hybridization (CGH) profiling of neuroblastomas has identified many genomic aberrations, although the limited resolution has precluded a precise localization of sequences of interest within amplicons. To map high copy number genomic gains in clinically matched stage IV neuroblastomas, CGH analysis using a 19,200-feature cDNA microarray was used. A dedicated (freely available) algorithm was developed for rapid in silico determination of chromosomal localizations of microarray cDNA targets, and for generation of an ideogram-type profile of copy number changes. Using these methodologies, novel gene amplifications undetectable by chromosome CGH were identified, and larger MYCN amplicon sizes (in one tumor up to 6 Mb) than those previously reported in neuroblastoma were identified. The genes HPCAL1, LPIN1/KIAA0188, NAG, and NSE1/LOC151354 were found to be coamplified with MYCN. To determine whether stage IV primary tumors could be further subclassified based on their genomic copy number profiles, hierarchical clustering was performed. Cluster analysis of microarray CGH data identified three groups: 1) no amplifications evident, 2) a small MYCN amplicon as the only detectable imbalance, and 3) a large MYCN amplicon with additional gene amplifications. Application of CGH to cDNA microarray targets will help to determine both the variation of amplicon size and help better define amplification-dependent and independent pathways of progression in neuroblastoma.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.