{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE327nnn/GSE327726/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Transcriptomics"],"species":["Homo sapiens"],"gds_type":["Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE327726"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Neuropilin-1 is required for Lytic Replication in a Subset of Primary Effusion Lymphoma Cell Lines and for KSHV gene expression in Primary Endothelial Cells","description":"Primary effusion lymphoma (PEL) is a B cell lymphoma that occur most often in people living with HIV/AIDS and caused by Kaposi sarcoma herpesvirus (KSHV). While newer regimens now exist, PEL still has poorer outcomes compared to other HIV-associated lymphomas. Since PEL B cells lack typical B cell markers, we aim to identify other surface proteins in disease cells that may act as possible diagnostic or prognostic markers. We performed single cell DNA-seq and antibody derived tag-seq on BCBL1 (KSHV+/EBV-) and LCL (KSHV-/EBV+ lymphoblastoid cell line) cells to determine which surface markers are specific for KSHV+ PEL. We identified Neuropilin-1 (NRP1) as a surface marker that is overexpressed in KSHV+ PEL cell lines (BCBL1, JSC1), but not in EBV+ LCL cells. NRP1 depletion during reactivation reduced lytic transcription, virion production and infectivity of NRP1+ PEL cell lines. Selected NRP1+ PEL cells also expressed higher levels of NANOG and OCT3/4 compared to controls. NRP1+ PEL cells had higher amounts of lytic transcripts. Overexpression of NRP1 resulted in higher lytic transcripts during lytic induction. Our findings suggest that NRP1 is a surface marker expressed for a subtype of PEL cells that is required for efficient lytic replication. It is also associated with increased expression of stemness markers, denoting poor prognosis in cancer.","dates":{"publication":"2026/09/08"},"accession":"GSE327726","cross_references":{"GSM":["GSM9664243"],"GPL":["24676"],"GSE":["327726"],"taxon":["Homo sapiens"]}}