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Series GSE10524 Query DataSets for GSE10524
Status Public on Jun 19, 2008
Title Genomic alterations and gene expression in primary diffuse large B cell lymphomas of immune privileged sites
Organism Homo sapiens
Experiment type Expression profiling by array
Genome variation profiling by genome tiling array
Summary Primary diffuse large B cell lymphomas of different immune-privileged sites (IP-DLBCL) share many clinical and biological features, such as a relatively poor prognosis, preferential dissemination to other immune-privileged sites and deletion of the HLA region, which suggests that IP-DLBCL represents a separate entity. To further investigate the nature of IP-DLBCL, we investigated site-specific genomic aberrations in 16 testicular, 9 central nervous system (CNS) and 15 nodal DLBCL using array-CGH. We also determined minimal common regions of gain and loss. Using robust algorithms, the array-CGH data were combined with gene expression data to explore pathways deregulated by chromosomal aberrations.
Keywords: comparative genomic hybridisation, gene expression, tumor type comparison
 
Overall design Whole tissue sections of 16 testicular, 9 central nervous system (CNS) and 15 nodal DLBCL were used for isolation of genomic DNA and total RNA. Genomic aberrations were determined using an in house printed CGH array containing ~3700 large genomic insert clones. Gene expression was analyzed on Affymetrix HU133 plus 2.0 oligo arrays. Gene expression data and arrayCGH data were combined using the R program ACE-it.
 
Contributor(s) Booman M, Szuhai K, Rosenwald A, Hartmann E, Kluin-Nelemans HC, de Jong D, Schuuring E, Kluin PM
Citation(s) 18729069
Submission date Feb 14, 2008
Last update date Mar 25, 2019
Contact name Marije Booman
E-mail(s) m.booman@path.umcg.nl
Organization name University Medical Center Groningen
Department Pathology
Street address P.O. Box 30001
City Groningen
ZIP/Postal code 9700 RB
Country Netherlands
 
Platforms (2)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
GPL4012 3.7k full genome LUMC BAC array
Samples (80)
GSM265873 CNS DLBCL 1C
GSM265874 CNS DLBCL 2C
GSM265875 CNS DLBCL 3C
Relations
BioProject PRJNA107873

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE10524_RAW.tar 228.2 Mb (http)(custom) TAR (of CEL, CHP, GPR)
Processed data included within Sample table

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