Similar studies for GEO DataSets (Select 200162516) - GEO DataSets

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Items: 20

Select item 2001625161.

Critical role of galectin-9 in EBV-driven transformation of human B-lymphocytes

(Submitter supplied) Background: In several types of malignancies, especially EBV-associated nasopharyngeal carcinomas, high Galectin-9 (Gal-9) expression is indicative of an aggressive tumor phenotype. The contribution of Gal-9 to the oncogenesis of B-cell lymphomas (BCLs) has not yet been investigated. Methods: The expression of Gal-9, STING, and EBNA1 was measured by immunohistochemical (IHC) staining on tumor sections from 66 BCL patients. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21290
7 Samples

Download data: TXT

Series

Accession:: GSE162516

ID:: 200162516

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001259742.

RNA-seq analysis of EBV transformation of primary resting B cells

(Submitter supplied) RNA profile changes in primary resting B cells after EBV infection

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
21 Samples

Download data: CSV

Series

Accession:: GSE125974

ID:: 200125974

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Select item 2000738873.

Identification of MEF2B, EBF1, and IL6R as chromosome bound targets of EBNA1 essential for EBV infected B-lymphocyte survival

(Submitter supplied) EBNA1 is the EBV-encoded nuclear antigen required for viral episome maintenance during latency. EBNA1 is a sequence specific DNA binding protein with high affinity binding sites for the viral genome, especially OriP. EBNA1 can also bind sequence specifically to a large number of sites in the host cellular genome, but the function of these binding sites has remained elusive. EBNA1 is also known to provide a host cell survival function, but the molecular mechanisms accounting for this function are not completely understood. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL16791 GPL9115
12 Samples

Download data: TXT

Series

Accession:: GSE73887

ID:: 200073887

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Select item 2001130704.

Role of Epstein-Barr Virus (EBV) latency protein EBNA3C in EBV-induced lymphomagenesis in a cord blood-humanized mouse model

(Submitter supplied) This study compares cellular and viral gene expression in a cord blood-humanized (CBH) mouse model infected with wild-type Epstein-Barr virus (WT), versus a mutant EBV deleted in the latent viral EBNA3C gene (∆3C). EBV causes human B-cell lymphomas and transforms B cells in vitro. EBNA3C, an EBV protein expressed in latently infected cells, is required for EBV transformation of B cells in vitro. However, many EBV+ lymphomas in humans do not express this protein, suggesting that it may be less important in vivo or that cellular mutations and/or signaling pathways may obviate the need for EBNA3C. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
4 Samples

Download data: XLSX

Series

Accession:: GSE113070

ID:: 200113070

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Select item 2001413855.

Epstein-Barr virus positive gastric cancer involves enhancer activation through ATF3

(Submitter supplied) ATF3 binding sites on the genome and histone modification arround the ATF3 binding sites were analized by ChIP-seq. Regulation of gene expression by ATF3 on active enhacer regions were analyzed by knocked down of ATF3.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL18573 GPL18460
12 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE141385

ID:: 200141385

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Select item 2000978386.

Genome-wide analysis of histone modification alteration at enhancer regions during epstein-barr virus infection.

(Submitter supplied) We analysed epigenetic alterations by EBV infection especially at enhancer regions, to elucidate their contribution to tumorigenesis. We performed ChIP-seq on H3K4me3, H3K4me1, H3K27ac, H3K27me3 and H3K9me3 using gastric epithelial cells with or without EBV infection. We showed that repressive marks were redistributed after EBV infection, resulting in aberrant enhancer activation and repression. Enhancer dysfunction leads to activation of pathway related to cancer hallmarks (e.g. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL18460 GPL10999
6 Samples

Download data: BIGWIG

Series

Accession:: GSE97838

ID:: 200097838

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000978377.

Histone modification (H3K4me3, H3K27ac, and H3K27me3) change during EBV infection in gastric epithelial cells

(Submitter supplied) Aberrant DNA hypermethylation is a major epigenetic mechanism to inactivate tumor suppressor genes in cancer, and Epstein-Barr virus (EBV) positive gastric cancer is known as the most frequently hypermethylated tumor among whole human malignancies. We here performed comprehensive analysis of epigenomic alteration during EBV infection, by Infinium HumanMethylation 450K BeadChip for DNA methylation and ChIP-sequencing for histone modification alteration. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL10999 GPL18460
6 Samples

Download data: BIGWIG

Series

Accession:: GSE97837

ID:: 200097837

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Select item 2001321388.

Identification of Host Biomarkers of EBV Latency IIb and Latency III

(Submitter supplied) Deciphering the molecular pathogenesis of virally induced cancers is challenging due, in part, to the heterogeneity of both viral and host gene expression. Epstein-Barr Virus (EBV) is a ubiquitous herpesvirus prevalent in B-cell lymphomas of the immune suppressed. EBV infection of primary human B cells leads to their immortalization into lymphoblastoid cell lines (LCLs) serving as a model of these lymphomas. more...

Organism:: human gammaherpesvirus 4; Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23362
16 Samples

Download data: XLSX

Series

Accession:: GSE132138

ID:: 200132138

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001540529.

Epstein-Barr Virus episome physically interacts with active regions of the host genome in lymphoblastoid cells

(Submitter supplied) Epstein-Barr virus (EBV) episome is known to interact with the three-dimensional structure of human genome in infected cells. However, the exact locations of these interactions and their potential functional consequences remain unclear. Recently the high-resolution chromatin interaction capture (Hi-C) assays in lymphoblastoid cells have become available enabling us to precisely map the contacts between the EBV episome(s) and the human host genome. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL11154
2 Samples

Download data: BED

Series

Accession:: GSE154052

ID:: 200154052

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20002020010.

Exon-Level Expression Data from Primary B Cells, Early Proliferating EBV-infected B Cells and Lymphoblastoid Cell Lines

(Submitter supplied) Eptstein-Barr Virus, an oncogenic herpesvirus, infects and immortalizes human B cells in culture into indefinitely-proliferating LCLs. We examined the gene expression of primary B cells during the process of infection and growth transformation at the exon level to analyze early and late virus-induced changes in expression and exon usage.

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL5188
12 Samples

Download data: CEL

Series

Accession:: GSE20200

ID:: 200020200

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Select item 20003692611.

The Epstein-Barr virus induced tumor suppressor miR-34a is growth promoting in EBV-infected B cells

(Submitter supplied) Epstein-Barr virus (EBV) infection of primary human B cells drives their indefinite proliferation into lymphoblastoid cell lines (LCLs). B cell immortalization depends on expression of viral latency genes as well as the regulation of host genes. Given the important role of miRNAs in regulating fundamental cellular processes, in this study we assayed changes in host miRNA expression during primary B cell infection by EBV. more...

Organism:: Mus musculus; Murid betaherpesvirus 1; JC polyomavirus; Human immunodeficiency virus 1; Human gammaherpesvirus 8; Human alphaherpesvirus 1; Human betaherpesvirus 5; human gammaherpesvirus 4; Betapolyomavirus macacae; Homo sapiens; Rattus norvegicus; Murid gammaherpesvirus 4; Betapolyomavirus hominis

Type:: Non-coding RNA profiling by array

Platform:: GPL7722
9 Samples

Download data: GPR

Series

Accession:: GSE36926

ID:: 200036926

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Select item 20013607512.

Functional interplay of Epstein-Barr Virus oncoproteins in a mouse model of B cell lymphomagenesis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Other; Genome variation profiling by genome tiling array

4 related Platforms
57 Samples

Download data: TXT, VCF

Series

Accession:: GSE136075

ID:: 200136075

PubMed Full text in PMC Similar studies

Select item 20013607413.

Detection of CNV in LMP1 mouse lymphomas

(Submitter supplied) 12 LMP1 expressing mouse tumors were anayzed by array-CGH to detect chromosomal copy number variations

Organism:: Mus musculus

Type:: Genome variation profiling by genome tiling array

Platform:: GPL24319
12 Samples

Download data: TXT

Series

Accession:: GSE136074

ID:: 200136074

PubMed Full text in PMC Similar studies

Select item 20013607314.

Exome mutations in mouse LMP1 Lymphomas

(Submitter supplied) 10 LMP1 expressing mouse lymphomas were sorted and sequenced for exome mutations

Organism:: Mus musculus

Type:: Other

Platform:: GPL19057
12 Samples

Download data: VCF

Series

Accession:: GSE136073

ID:: 200136073

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20013607215.

RNA-expression profiling of mouse B cells coexpressing LMP1 with EBNA3A, Rel or Ebf1 in vitro

(Submitter supplied) mouse B cells coexpressing LMP1 with EBNA3A, Rel or Ebf1 were cultured for 6 days in vitro and analysed by RNA-sequencing

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
17 Samples

Download data: CSV

Series

Accession:: GSE136072

ID:: 200136072

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20013607116.

RNA-expression profiling of LMP1 expressing mouse B cells before and after transformation in vivo

(Submitter supplied) Non-transformed LMP1 expressing mouse B cells or mouse LMP1 lymphomas were analysed by RNA-sequencing

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
16 Samples

Download data: CSV

Series

Accession:: GSE136071

ID:: 200136071

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Select item 20015827517.

Single-cell characterization of transcriptomic heterogeneity in lymphoblastoid cell lines

(Submitter supplied) We report single-cell RNA sequencing datasets for three lymphoblastoid cell lines (LCLs) prepared by infection of primary B cells with Epstein-Barr Virus (EBV). Inter- and intra-sample transcriptional variance is observed with respect to immunoglobulin heavy chain class; host gene sets involved in survival, proliferation and differentiation; and viral replication state. We propose that the observed heterogeneity arises from the dynamic nature of host-pathogen interactions, donor-specific compositions of primary B cells, and other experimental factors such as stochastic clonal evolution in cell culture conditions.

Organism:: human gammaherpesvirus 4; Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23362
3 Samples

Download data: MTX, TSV

Series

Accession:: GSE158275

ID:: 200158275

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20015534518.

A Multi-Omics Approach to Epstein-Barr Virus (EBV) Immortalization of B-Cells Reveals Viral-Induced Changes in Chromatin Accessibility and Nucleotide Metabolism

(Submitter supplied) Epstein-Barr Virus (EBV) immortalizes resting B-lymphocytes through a highly orchestrated process involving extensive reprogramming of host transcription and metabolism. Here, we use multiple omics-based approaches concurrently across the time course of B-cell infection to investigate the underlying mechanisms that control EBV-induced B-cell immortalization. ATAC-seq revealed that over a third of accessible chromatin is altered with the most perturbed sites overlapping Ets-family, including PU.1 and RUNX1 transcription factors. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL18573
16 Samples

Download data: BW, TXT

Series

Accession:: GSE155345

ID:: 200155345

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20012895219.

A DNA tumor virus globally reprograms host 3D genome architecture to achieve immortal growth

(Submitter supplied) Epstein-Barr virus (EBV) immortalizes resting human B lymphocytes in vitro through expression of viral transcription factors (TFs). These viral TFs activate the expression of key oncogenes, many through long-range enhancer looping. Here we combined various chromatin conformation capture related methods (HiC, HiChIP, 4C-seq etc) to systematically evaluate the effect of EBV infection on host genome-wide 3D organization.

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:: GPL18573 GPL16791
32 Samples

Download data: BED, BEDGRAPH, HIC, NARROWPEAK, TXT

Series

Accession:: GSE128952

ID:: 200128952

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012637920.

Gene expression profiling of human CD19+ B cells and EBV transformed lymphoblastoid cell lines (LCLs)

(Submitter supplied) Genome wide association studies have identified >200 susceptibility loci accounting for much of the heritability of Multiple Sclerosis (MS). Epstein-Barr virus (EBV), a memory B cell tropic virus, has been identified as necessary but not sufficient for development of MS. The molecular and immunological basis for this has not been established. Infected B cell proliferation is driven by signalling through the EBV produced cell surface protein LMP1, a homologue of the MS risk gene CD40. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
10 Samples

Download data: TXT

Series

Accession:: GSE126379

ID:: 200126379

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

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