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Comparative genomic hybridization of 100 favourable histology Wilms tumour samples taken at immediate nephrectomy in order to identify changes in DNA copy number associated with clinical outcome

ABSTRACT: We have carried out microarray-based comparative genomic hybridisation (arrayCGH) on 100 favourable histology Wilms tumour samples taken at immediate nephrectomy in order to identify changes in DNA copy number associated with clinical outcome. Tumour DNA was co-hybridised with normal female genomic DNA onto microarrays consisting of 4263 BAC clones with an approximate 1Mb spacing throughout the genome. Data was normalised and quality-filtered, an adapted weights smoothing algorithm fitted, and changes in DNA copy number assessed for each clone.

ORGANISM(S): Homo sapiens

DISEASE(S): normal

SUBMITTER: Anita Grigoriadis

PROVIDER: E-TABM-10 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Amplification and overexpression of CACNA1E correlates with relapse in favorable histology Wilms' tumors.

Natrajan Rachael R Little Suzanne E SE Reis-Filho Jorge S JS Hing Lara L Messahel Boo B Grundy Paul E PE Dome Jeffrey S JS Schneider Toni T Vujanic Gordan M GM Pritchard-Jones Kathy K Jones Chris C

Clinical cancer research : an official journal of the American Association for Cancer Research 20061201 24

<h4>Purpose</h4>The most well established molecular markers of poor outcome in Wilms' tumor are loss of heterozygosity at chromosomes 1p and/or 16q, although to date no specific genes at these loci have been identified. We have previously shown a link between genomic gain of chromosome 1q and tumor relapse and sought to further elucidate the role of genes on 1q in treatment failure.<h4>Experimental design</h4>Microarray-based comparative genomic hybridization identified a microamplification harb ...[more]

PMID: 17189400

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Comparative genomic hybridization of 17 favourable histology Wilms tumour samples taken at immediate nephrectomy in order to identify changes in DNA copy number associated with clinical outcome

Project description:We have carried out microarray-based comparative genomic hybridisation (arrayCGH) on 17 Favourable histology Wilms tumour samples taken at immediate nephrectomy in order to identify changes in DNA copy number associated with clinical outcome. Tumour DNA was co-hybridised with normal female genomic DNA onto microarrays consisting of 2118 BAC clones with tiling-path coverage of chromosome 1. Data was normalised and quality-filtered, an adapted weights smoothing algorithm fitted, and changes in DNA copy number assessed for each clone.

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Project description:We have carried out microarray-based comparative genomic hybridisation (arrayCGH) on 50 perilobar nephrogenic rest and 25 matching Wilms tumours in order to identify changes in DNA copy number associated with IGF-driven Wilms tumorigenesis. All patient samples were formalin fixed-paraffin embedded archival material. Tumour DNA was co-hybridised with normal female genomic DNA onto 5.8K, 0.9Mb-spaced (E-MEXP-213) and/or a 16K, 100kb-spaced BAC array. Data was normalised and quality-filtered, an adapted weights smoothing algorithm fitted, and changes in DNA copy number assessed for each clone.

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Comparative genomic hybridization of high grade gliomas arising in children and young people

Project description:As genome-scale technologies begin to unravel the complexity of the equivalent tumours in adults, detailed characterisation of high grade gliomas in children have until recently been lacking. In order to validate and extend investigations of the differences between paediatric and adult tumours, we carried out copy number profiling by array CGH using a 32K BAC platform on 63 formalin-fixed paraffin-embedded (FFPE) cases of high grade glioma arising in children and young people (<23 yrs).

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Comparative genomic hybridization of kidney samples from Wilms tumor patients to accurately map 1p13 breakpoints

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Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

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TP53 mutational status is a potential marker for risk stratification in Wilms tumour with diffuse anaplasia [aCGH]

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2014-08-30 | E-GEOD-60852 | biostudies-arrayexpress

Comparative genomic hybridization by array of human lymphoma samples

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Transcriptomic responses to high water temperature in Pacific salmon [2007]

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