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Comparative genomic hybridization of human perilobar nephrogenic rest and matching Wilms tumours to identify changes in DNA copy number associated with IGF-driven Wilms tumorigenesis

ABSTRACT: 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.

ORGANISM(S): Homo sapiens

DISEASE(S): perilobar nephrogenic rest

SUBMITTER: Anita Grigoriadis

PROVIDER: E-TABM-436 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Expression of hepatocyte growth factor and its receptor met in Wilms' tumors and nephrogenic rests reflects their roles in kidney development.

Vuononvirta Raisa R Sebire Neil J NJ Messahel Boo B Perusinghe Nina N Reis-Filho Jorge S JS Pritchard-Jones Kathy K Vujanic Gordan M GM Jones Chris C

Clinical cancer research : an official journal of the American Association for Cancer Research 20090324 8

<h4>Purpose</h4>Hepatocyte growth factor (HGF) and its receptor Met are known to play diverse roles in both organogenesis and cancer. Wilms' tumor (WT) is a prototype for the link between abrogated development and neoplasia, with dysregulation of growth factor/receptor pathways playing key roles. Despite this, an understanding of the HGF/Met axis in the process is lacking.<h4>Experimental design</h4>Observing copy number alterations at the loci for these genes in WTs and their precursor lesions ...[more]

PMID: 19318497

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

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