E-TABM-13 - 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

Status
Released on 11 May 2006, last updated on 2 May 2014
Organism
Homo sapiens
Samples (22)
Array (1)
Protocols (10)
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.
Experiment types
comparative genomic hybridization by array, disease state, reference
Contact
Citation
Array CGH profiling of favourable histology wilms tumours reveals novel gains and losses associated with relapse. Rachael Natrajan, Richard D. Williams, Sandra N. Hing, Suzanne E. Little, Alan Mackay, Jorge S. Reis-Filho, Kerry Fenwick, Marjan Iravani, Haukur Valgeirsson, Anita Grigoriadis, Cordelia F. Langford, Oliver Dovey, Simon G. Gregory, Barbara L. Weber, Alan Ashworth, Paul E. Grundy, Kathy Pritchard-Jones, Chris Jones. J Pathol  (2006)
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-TABM-13.idf.txt
Sample and data relationshipE-TABM-13.sdrf.txt
Raw data (1)E-TABM-13.raw.1.zip
Processed data (1)E-TABM-13.processed.1.zip
Array designA-MEXP-204.adf.txt
R ExpressionSetE-TABM-13.eSet.r
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