{"database":"biostudies-other","file_versions":[],"scores":null,"additional":{"submitter":["Booman M"],"pagination":["209-217"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-ECPF-GEOD-10524"],"project":["EurocanPlatform"],"abstract":["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 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."],"repository":["biostudies-other"],"experiment_type":["transcription profiling by array, comparative genomic hybridization by array"],"data_source":["EurocanPlatform"],"omics_type":["Unknown"],"volume":["216"],"journal":["The Journal of pathology"],"species":["Homo sapiens"],"pubmed_authors":["Rosenwald A","Kluin P","Szuhai K","Kluin-Nelemans H","Booman M","Hartmann E","Schuuring E","de Jong D"],"additional_accession":[]},"is_claimable":false,"name":"Genomic alterations and gene expression in primary diffuse large B cell lymphomas of immune privileged sites","description":"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 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.","dates":{"release":"2016-04-14T13:26:58Z","publication":"2008 Oct","modification":"2016-04-14T13:26:58Z","creation":"2016-04-14T13:26:58Z"},"accession":"S-ECPF-GEOD-10524","cross_references":{"GEO":["GSE10524"],"ArrayExpress":["E-GEOD-10524"],"EFO":["EFO_0000635","EFO_0000574"],"ArrayExpress files":["E-GEOD-10524"]}}