GEO DataSets

(Submitter supplied) RNA-sequencing from MHV68 ORF50 stop and WT virus infected 3T12 cells (timepoint) post infection.

Organism:

Murid gammaherpesvirus 4; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33263

6 Samples

Download data: FA, GTF, TXT

(Submitter supplied) Within the first 15 minutes of infection, herpes simplex virus 1 (HSV-1) immediate early proteins repurpose cellular RNA polymerase (Pol II) for viral transcription. An important role of the viral infected cell protein 27 (ICP27) is to facilitate viral pre-mRNA processing and export of viral mRNA to the cytoplasm. Here, we use precision nuclear run-on followed by deep sequencing (PRO-seq) to characterize transcription of a viral ICP27 null mutant. more...

Organism:

Homo sapiens; Drosophila melanogaster; Human alphaherpesvirus 1

Type:

Other

Platform:

GPL29914

12 Samples

Download data: BW

(Submitter supplied) Epstein-Barr virus (EBV) is an etiologic risk factor, and likely prerequisite, for the development of multiple sclerosis (MS). However, the role of EBV infected B cells in the immunopathology of MS is not well understood. Here, we characterized spontaneous lymphoblastoid cell lines (SLCLs) isolated from MS patients and healthy controls (HC) ex vivo to study EBV and host gene expression in the context of an individual’s endogenous EBV. more...

Organism:

human gammaherpesvirus 4

Type:

Other

Platform:

GPL34327

9 Samples

Download data: BW, TXT

(Submitter supplied) As a human tumor virus, EBV is present as a latent infection in its associated malignancies where genetic and epigenetic changes have been shown to impede cellular differentiation and viral reactivation. One such change is increased levels of the Wnt signaling effector, lymphoid enhancer binding factor 1 (LEF1) following EBV epithelial infection. In silico analysis of EBV type 1 and 2 genomes identified over 20 Wnt-response elements suggesting that LEF1 may directly bind the EBV genome and regulate the viral life cycle. more...

Organism:

human gammaherpesvirus 4

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL33849 GPL33850

31 Samples

Download data: BEDGRAPH

(Submitter supplied) Epstein-Barr virus (EBV) establishes lifelong asymptomatic infection by replication of its chromatinized episomes with the host genome. EBV exhibits different latency-associated transcriptional repertoires, each with distinct three-dimensional structures. CTCF, Cohesin and PARP1 are involved in maintaining viral latency and establishing episome architecture. Epstein-Barr virus-associated gastric cancer (EBVaGC) represents 1.3% to 30.9% of all gastric cancers globally. more...

Organism:

human gammaherpesvirus 4; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23185

3 Samples

Download data: TXT

(Submitter supplied) Epstein-Barr virus (EBV) establishes lifelong asymptomatic infection by replication of its chromatinized episomes with the host genome. EBV exhibits different latency-associated transcriptional repertoires, each with distinct three-dimensional structures. CTCF, Cohesin and PARP1 are involved in maintaining viral latency and establishing episome architecture. Epstein-Barr virus-associated gastric cancer (EBVaGC) represents 1.3% to 30.9% of all gastric cancers globally. more...

Organism:

human gammaherpesvirus 4; Homo sapiens

Type:

Other

Platform:

GPL23185

4 Samples

Download data: BEDPE, TXT

(Submitter supplied) Epstein-Barr virus (EBV) establishes lifelong asymptomatic infection by replication of its chromatinized episomes with the host genome. EBV exhibits different latency-associated transcriptional repertoires, each with distinct three-dimensional structures. CTCF, Cohesin and PARP1 are involved in maintaining viral latency and establishing episome architecture. Epstein-Barr virus-associated gastric cancer (EBVaGC) represents 1.3% to 30.9% of all gastric cancers globally. more...

Organism:

human gammaherpesvirus 4

Type:

Other

Platform:

GPL25190

10 Samples

Download data: TXT

(Submitter supplied) Epstein-Barr virus (EBV) establishes lifelong asymptomatic infection by replication of its chromatinized episomes with the host genome. EBV exhibits different latency-associated transcriptional repertoires, each with distinct three-dimensional structures. CTCF, Cohesin and PARP1 are involved in maintaining viral latency and establishing episome architecture. Epstein-Barr virus-associated gastric cancer (EBVaGC) represents 1.3% to 30.9% of all gastric cancers globally. more...

Organism:

human gammaherpesvirus 4

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25190

12 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) We used ac4C-seq to detedc cellular and KSHV transcripts in iSLK-Puro, iSLK-KSHV, iSLK-KSHV (WT), iSLK-KSHV (ΔNAT10) cells after after doxycycline and sodium butyrate treatment.

Organism:

Human gammaherpesvirus 8; Homo sapiens

Type:

Other

Platform:

GPL30065

24 Samples

Download data: TXT, XLS

(Submitter supplied) Flag-RIP-seq was performed in NAT10-Flag overexpressing iSLK-KSHV cells.

Organism:

Homo sapiens; Human gammaherpesvirus 8

Type:

Other

Platform:

GPL30065

12 Samples

Download data: TXT

(Submitter supplied) We examined the viral epitranscriptome in EBV transformed lymphoblastoid cell lines (LcLs) and EBV-positive Burkitt's lymphoma, Akata cells, using methylated RNA immunoprecipitation followed by sequencing (MeRIP-seq). Biological replicates of ribo-RNA deleted mRNA of each cell type were prepared for MeRIP-seq followed by peak calling using the exome Peak package with settings for stringent peak calling on both strands of the genome.

Organism:

human gammaherpesvirus 4

Type:

Other

Platform:

GPL26377

16 Samples

Download data: CSV, TXT

(Submitter supplied) To investigate the EBV genome after Decitabine treatment by CTCF ChIP-seq

Organism:

human gammaherpesvirus 4

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL33481

8 Samples

Download data: BW

(Submitter supplied) To investigate the EBV genome after Decitabine treatment by reduced representation bisulfite sequencing, ATAC-seq, and RNA-seq

Organism:

human gammaherpesvirus 4

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25190

18 Samples

Download data: BW, TXT

(Submitter supplied) To investigate the EBV genome after Decitabine treatment by reduced representation bisulfite sequencing, ATAC-seq, and RNA-seq

Organism:

human gammaherpesvirus 4

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL33481

12 Samples

Download data: BW

(Submitter supplied) Herpes simplex virus replicates and forms progeny in the nucleus where it must overcome host chromatin to establish a successful infection. During lytic infection, newly formed viral capsids navigate through heterochromatin channels at the nuclear periphery to egress out of the nucleus. In uninfected cells, specific histone marks such as trimethylation on histone H3 lysine 27 (H3K27me3) and the histone variant macroH2A1 delineate heterochromatin regions, or repressed chromatin, that are predominantly located in the nuclear periphery. more...

Organism:

Homo sapiens; Human alphaherpesvirus 1

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL23890

48 Samples

Download data: BW

(Submitter supplied) To investigate the EBV genome after Decitabine treatment by reduced representation bisulfite sequencing, ATAC-seq, and RNA-seq

Organism:

human gammaherpesvirus 4

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL25190

8 Samples

Download data: COV

(Submitter supplied) Epstein-Barr virus (EBV) and human herpesvirus 6 (HHV-6) infection is widespread among people. Here I describe single-cell RNA sequencing of two lymphoblastoid cell lines harboring both episomal EBV and inherited chromosomally integrated HHV-6. Rare instances of HHV-6 expression appear enriched with EBV reactivation.

Organism:

human gammaherpesvirus 4; Human betaherpesvirus 6B; Homo sapiens; Human betaherpesvirus 6A

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL33373 GPL33355

2 Samples

Download data: H5

(Submitter supplied) Dendritic cells (DC) play a crucial role in generating and maintaining antiviral immunity. While DC are implicated in the antiviral defense by inducing T cell responses, they can also become infected by Cytomegalovirus (CMV). CMV is not only highly species-specific but also specialized in evading immune protection, and this specialization is in part due to characteristic genes encoded by a given virus. more...

Organism:

Rattus norvegicus; Murid betaherpesvirus 8

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL22396 GPL34220

15 Samples

Download data: TSV

(Submitter supplied) Purpose: to investigate the role of the HCMV immediate early genes in controlling the HCMV and cellular transcriptomes

Organism:

Homo sapiens; Human betaherpesvirus 5

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29977

4 Samples

Download data: BIGWIG

(Submitter supplied) Purpose: to investigate the role of the HCMV immediate early proteins in controlling the HCMV and cellular epigneomes during lytic infectioin

Organism:

Homo sapiens; Human betaherpesvirus 5

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL29977

16 Samples

Download data: BIGWIG