E-GEOD-47633 - The genomic and transcriptomic dynamics of treatment-naïve epithelial ovarian cancer

Status
Released on 5 June 2013, last updated on 3 June 2014
Organism
Homo sapiens
Samples (31)
Array (1)
Protocols (5)
Description
We reveal three-dimensional patterns of tumour growth by exploiting the unique metastasizing patterns of treatment naïve stage IIIC/IV epithelial ovarian cancer. We performed topographic mapping of structural genomic rearrangements, coding mutations, copy number changes and RNA expression in biopsies derived from 27 primary and metastatic sites across three patients. Based on somatic genomic changes, we performed sample clustering and obtained unique insight in natural tumour growth and spread. Based on extensive multi-level profiling, our data highlight the diverse modes of epithelial ovarian cancer development before applying selective pressure from therapy. We performed SNP array analysis on tumor biopsies from 3 patients (P1, P2, P3) with advanced stage ovarian cancer. This submission includes SNP data for 26 tumor biopsies and 5 normal tissue samples.
Experiment type
genotyping by array 
Contacts
Wigard Kloosterman <w.kloosterman@umcutrecht.nl>, Clarence Lee, Edwin Cuppen, Els P Witteveen, Emile Voest, Geert Cirkel, Isaac J Nijman, Ivo Renkens, Jennifer Kreeftmeijer, Karen Duran, Marco Koudijs, Markus J van Roosmalen, Marlous Hoogstraat, Martijn Lolkema, Mirjam de Pagter, Ronald Zweemer, Ruben van 't Slot, Tanisha Guy, Tim Harkins, Trudy Jonges, Wigard P Kloosterman
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-47633.idf.txt
Sample and data relationshipE-GEOD-47633.sdrf.txt
Processed data (2)E-GEOD-47633.processed.1.zip, E-GEOD-47633.processed.2.zip
Array designA-GEOD-8855.adf.txt
Links