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Series GSE2149 Query DataSets for GSE2149
Status Public on Jan 16, 2005
Title Gene Expression Profile of Primary Effusion Lymphoma
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Primary effusion lymphomas (PELs) are specifically associated with KSHV/HHV-8 infection, and most frequently occur in HIV-positive individuals as lymphomatous effusions in the serous cavities without a detectable solid tumor mass. Most PELs have concomitant EBV infection, suggesting that EBV is an important pathogenetic co-factor, although other as yet unidentified cofactors, such as cellular genetic alterations, are also likely to play a role. Lymphomatous effusions that lack KSHV also occur; these are frequently EBV-associated in the setting of HIV infection. Here we used gene expression profile analysis to determine the viral impact on cellular gene expression and the pathogenesis of these lymphomatous effusions.
We used the Affymetrix HG-U133A microarray to analyze the gene expression profile of these effusion lymphomas (three virologic groups: KSHV-positive EBV-positive PELs, KSHV-positive EBV-negative PELs and KSHV-negative EBV-positive lymphomatous effusions). Nine cell lines derived from patients with lymphomatous effusions (three from each virologic group and each cell line was done in duplicates.) and three PEL patient samples were used in the study. Our results suggest that KSHV-positive PELs are very different from KSHV-negative lymphomatous effusions, and the genes that are differentially expressed include apoptosis regulators, cell cycle regulators, transcriptional factors and signal transduction regulators. KSHV clearly plays a dominant role in the phenotype of PEL. Within the KSHV-positive PELs, two subgroups can be identified, which were correlated with their EBV viral status. Among these genes (45 gene probes), four were regulators of the MAP kinase pathway that were up-regulated in the KSHV-positive, EBV-negative PELs, suggesting that in the absence of EBV, events that lead to the activation of the MAP kinase pathway may act as a cofactor for the development of PEL. Next we determined whether we could predict the viral status of the three primary patient cases of PEL based on the 45 gene probes that were differentially expressed in KSHV-positive cell lines according to EBV status (pt. 1: KSHV-positive, EBV-positive; Pt. 2: KSHV-positive, low proportion of EBV-positive; pt. 3: KSHV-positive EBV-negative), and we could.
KSHV-positive EBV-positive cell lines: BC-1, BC-2, BC-5
KSHV-positive EBV-negative cell lines: BC-3, BCBL-1, PEL-5
KSHV-negative EBV-positive cell lines: IBL4, SM1, BCKN-1
pt. 1: KSHV-positive, EBV-positive
pt. 2: KSHV-positive, EBV-positive (low number of positive cells)
pt. 3: KSHV-positive, EBV-negative

Keywords: other
Contributor(s) Fan W, Bubman D, Chadburn A, Harrington WJ Jr, Cesarman E, Knowles DM
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Submission date Jan 12, 2005
Last update date Aug 10, 2018
Contact name wen fan
Phone 212-746-2442
Organization name Weill Medical College of Cornell University
Department Pathology and Laboratory Medicine
Street address 1300 York Ave
City New York
State/province NY
ZIP/Postal code 10021
Country USA
Platforms (1)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
Samples (21)
GSM38789 Pt.2
GSM38790 Pt. 1
GSM38791 Pt. 3
BioProject PRJNA91407

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