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Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [ChIP-Seq]

ABSTRACT: We analyzed active enhancers of nasopharyngeal epithelial cell lines and nasopharyngeal carcinoma cell lines by performing ChIP-seq on H3K4me1, H3K4me3, and H3K27ac.

ORGANISM(S): Homo sapiens

PROVIDER: GSE225248 | GEO | 2024/03/27

REPOSITORIES: GEO

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Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [Hi-C]

Project description:We analyzed the compartment status and chromatin interactions in nasopharyngeal epithelial cell lines and nasopharyngeal carcinoma cell lines by performing Hi-C.

2024-03-27 | GSE225249 | GEO

Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [RNA-Seq]

Project description:We analyzed the gene expressions around the host genomic regions where EBV and host genomic interactions were obsearved in nasopharyngeal carcinoma cell lines.

2024-03-27 | GSE225250 | GEO

Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [4C-Seq]

Project description:We detected the EBV interaction regions and the genomic loops from TSS of PLA2G4A in nasopharyngeal carcinoma cell lines by 4C-seq analysis.

2024-03-27 | GSE225247 | GEO

Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-03-27 | GSE225251 | GEO

Competitive Endogenous RNA Landscape in Epstein-Barr Virus Associated Nasopharyngeal Carcinoma

Project description:In this study, we investigated the role of microRNAs and circular RNAs in Nasopharyngeal Carcinoma (NPC) by constructing a circRNA-miRNA-mRNA co-expression network and performing differential expression analysis on mRNAs, miRNAs, and circRNAs. By comparing the expression profile of non-cancerous immortalized nasopharyngeal epithelial cell lines and NPC cell lines, we identified differentially expressed coding and non-coding RNAs. By leveraging coexpression and miRNA target prediction tools, we constructed a ceRNA network composed of mRNAs, miRNAs, and circRNAs.

2022-09-01 | GSE181906 | GEO

Repression of DERL3 via DNA methylation by Epstein-Barr virus latent membrane protein 1 in nasopharyngeal carcinoma [methylation data]

Project description:The comprehensive DNA methylation analysis with nasopharyngeal carcinoma cases with normal nasopharyngeal epithelial tissues, and nasopharyngeal epithelial cell lines. Infinium HumanMethylation850 BeadChip was used to obtain DNA methylation profiles across 850,000 CpG sites. Samples included 2 nasopharyngeal carcinoma cases, 3 normal nasopharyngeal epithelial tissues, and NP69T and NP69T-LMP1 cell lines.

2023-02-26 | GSE198332 | GEO

Identification of novel Epstein-Barr Virus miRNA genes from Nasopharyngeal Carcinomas

Project description:MicroRNAs (miRNAs) represent a conserved class of small non-coding RNAs that are found in all higher eukaryotes as well as some DNA viruses. MiRNAs are 20-25 nucleotides (nt) in length and have important regulatory functions in biological processes such as embryonic development, cell differentiation, hormone secretion or metabolism. Furthermore, miRNAs have been implicated in the pathology of various diseases including cancer. MiRNA expression profiles not only classify different types of cancer but also may even help to characterize distinct tumor stages, therefore constituting a valuable tool for prognosis. Here we report the miRNA profile of Epstein-Barr Virus (EBV)-positive nasopharyngeal carcinoma (NPC) tissue samples characterized by cloning and sequencing. We find that all EBV miRNAs from the BART region are expressed in NPC tissues whereas ebv-miRNAs from the BHRF1 region are not found. Moreover, we identify two novel EBV miRNA genes originating from the BART region that have not been found in other tissues or cell lines before. We also identify three new human miRNAs, which might be specific for nasopharyngeal tissues. We further show that a number of different cellular miRNAs are upor down-regulated in NPC tissues compared to control tissue including miR-15a and miR-16. We find that the tumor suppressor BRCA-1 is a target of miR-15a as well as miR-16 suggesting a miRNA role in NPC pathogenesis. 2 pairs of NPC and control tissues from 2 patients (4 samples in total) were examined.

2009-02-07 | E-GEOD-14738 | biostudies-arrayexpress

Identification of novel Epstein-Barr Virus miRNA genes from Nasopharyngeal Carcinomas

2009-02-07 | GSE14738 | GEO

Repression of DERL3 via DNA methylation by Epstein-Barr virus latent membrane protein 1 in nasopharyngeal carcinoma [RNA-seq]

Project description:To identify the significant EBV-LMP1 inducible methylation genes in nasopharyngeal cancer, two cell lines (NP69T, NP69T-LMP1) were subjected to RNA-seq analysis.

2023-02-26 | GSE198335 | GEO

Expression profiling of host genes modulated by Epstein-Barr virus Rta in nasopharyngeal carcinoma cells

Project description:EBV Rta is a transcriptional activator that functions to disrupt EBV latency in cells of epithelial origin. This series of experiment is to identify host genes that are moduated by the expression of doxycycline-inducible EBV Rta in nasopharyngeal carcinoma cells. Designations for the two EBV Rta inducible cell lines are TW01TetER_cl7 (lower expression level) and TW01TetER_cl19 (higher expression level); for the control line is TW01Tet.

2011-05-22 | GSE24586 | GEO

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