E-GEOD-4176 - Transcription profiling and genotyping of 26 human mantle cell lymphoma samples

Status
Released on 24 June 2007, last updated on 27 March 2012
Organism
Homo sapiens
Samples (36)
Arrays (3)
Protocols (9)
Description
Among B-cell lymphomas mantle cell lymphoma (MCL) has the worst prognosis. By using a combination of genomic and expression profiling (Affymetrix GeneChip Mapping 10k Xba131 and U133 set), we analysed 26 MCL samples to identify genes relevant to MCL pathogenesis and that could represent new therapeutic targets. Recurrent genomic deletions and gains were detected. Genes were identified as overexpressed in regions of DNA gain on 3q, 6p, 8q, 9q, 16p and 18q, including the cancer genes BCL2 and MYC. Among the transcripts with high correlation between DNA and RNA, we identified SYK, a tyrosine kinase involved in B-cell receptor signalling. SYK was amplified at DNA level, as validated by fluorescence in situ hybridisation (FISH) analysis, and overexpressed at both RNA and protein levels in the JeKo-1 cell line. Low-level amplification, with protein overexpression of Syk was demonstrated by FISH in a small subset of clinical samples. After treatment with low doses of the Syk inhibitor piceatannol, cell proliferation arrest and apoptosis were induced in the cell line overexpressing Syk, while cells expressing low levels of Syk were much less sensitive. A combination of genomic and expression profiling suggested Syk inhibition as a new therapeutic strategy to be explored in lymphomas.
Experiment types
transcription profiling by array, co-expression, disease state, genotyping
Contact
Citation
Genomic and expression profiling identifies the B-cell associated tyrosine kinase Syk as a possible therapeutic target in mantle cell lymphoma. Andrea Rinaldi,Ivo Kwee,Monica Taborelli,Cristina Largo,Silvia Uccella,Vittoria Martin,Giulia Poretti,Gianluca Gaidano,Giuseppe Calabrese,Giovanni Martinelli,Luca Baldini,Giancarlo Pruneri,Carlo Capella,Emanuele Zucca,Finbarr E Cotter,Juan C Cigudosa,Carlo V Catapano,Maria G Tibiletti,Francesco Bertoni.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-4176.idf.txt
Sample and data relationshipE-GEOD-4176.sdrf.txt
Raw data (1)E-GEOD-4176.raw.1.zip
Processed data (1)E-GEOD-4176.processed.1.zip
Array designsA-AFFY-33.adf.txt, A-AFFY-34.adf.txt, A-AFFY-64.adf.txt
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