Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Human betaherpesvirus 6B

ABSTRACT: Small RNA deep-sequencing identifies microRNAs and other small non-coding RNAs from human herpesvirus 6 (HHV-6B)

PROVIDER: PRJNA149833 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR387909.fastq.gz	Fastqsanger.gz
	SRR387910.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Human herpesvirus 6B (HHV-6B) detection and genome-wide host expression profiles implicate HHV-6B as a pulmonary pathogen after hematopoietic cell transplantation

Project description:Limited understanding of the immunopathogenesis of human herpesvirus 6B (HHV-6B) has prevented its acceptance as a pulmonary pathogen after hematopoietic cell transplantation (HCT). We conducted a prospective multicenter study of patients undergoing bronchoalveolar lavage (BAL) for pneumonia after allogeneic HCT. We tested blood and BAL fluid (BALF) for HHV-6B DNA and mRNA transcripts associated with lytic infection and performed RNA-seq on paired blood. Among 116 participants, HHV-6B DNA was detected in 37% of BALs, 49% of which had HHV-6B mRNA detection. We established an HHV-6B DNA threshold (≥2.3 log10copies/ml in BALF) that was highly predictive of HHV-6B mRNA detection and increased risk for death from respiratory failure (adjusted HR, 2.35; 95% CI, 1.08-5.11). Participants with HHV-6B DNA in BALF exhibited distinct host gene expression signatures, notable for enriched interferon signaling pathways in participants clinically diagnosed with idiopathic pneumonia. These data implicate HHV-6B as a pulmonary pathogen after allogeneic HCT.

2023-12-18 | GSE244210 | GEO

Small RNA deep-sequencing identifies microRNAs and other small non-coding RNAs from human herpesvirus 6 (HHV-6B)

Project description:Roseolovirus, or human herpesvirus 6 (HHV-6) is a ubiquitous human pathogen infecting over 95% of the population by the age of two years. As with other herpesviruses, reactivation of HHV-6 can present with severe complications in immunocompromised individuals. Recent studies have highlighted the importance of herpesvirus-derived micro (mi)RNAs in modulating both cellular and viral gene expression. An initial report, which computed the likelihood of various viruses to encode for miRNAs, did not predict HHV-6 miRNAs. To experimentally screen for small HHV-6 encoded RNAs, we conducted large-scale sequencing of Sup-T-1 cells lytically infected with a laboratory strain of HHV-6B. This revealed an abundant 60-65 nucleotide RNA of unknown function derived from the lytic origin of replication (OriLyt) that gave rise to smaller RNA species of 18-19 nucleotides in length. In addition, we identified four pre-miRNAs, whose mature forms accumulated in Argonaute 2. In contrast to other beta-herpesviruses, HHV-6B miRNAs are expressed from direct repeat regions (DRL and DRR) located at either side of the genome. All miRNAs are conserved in the closely related HHV-6A variant, and one of them is a seed ortholog of the human miR-582-5p. Similar to alpha-herpesvirus miRNAs, they are expressed antisense to immediate early ORFs and thus have the potential to regulate key viral regulators. Small RNA sequencing from total RNA or Ago2 associated small RNAs extracted from HHV-6 infected Sup-T-1 cells

2012-01-01 | E-GEOD-34196 | biostudies-arrayexpress

Small RNA deep-sequencing identifies microRNAs and other small non-coding RNAs from human herpesvirus 6 (HHV-6B)

2012-01-01 | GSE34196 | GEO

Human betaherpesvirus 6B strain:Z29

Project description:Human Herpesvirus 6B Z29 Transcriptome

| PRJNA680783 | ENA

Differential gene expression analysis of in vitro expanded CD4 T cells responding to HHV-6B and HCMV epitopes

Project description:Assessment of the functional differences of HHV-6B-specific and HCMV-specific CD4 T cells at RNA level. The peripheral blood mononuclear cells samples were collected from normal subjects expressing HLA-DRB1*03:01. The HHV-6B-specific or HCMV-specific T cells were expanded in vitro using known HLA-DRB1*03:01 epitopes derived from HHV-6B (6 epitopes) or HCMV (1 epitope) and isolated after 12-15 days of culture using the corresponding HLA-DRB1*03:01 tetramers.

2025-11-20 | E-MTAB-16144 | biostudies-arrayexpress

Single-cell gene expression analysis of in vitro expanded CD4 T cells responding to HHV-6B and HCMV epitopes

Project description:Assessment of the gene expression differences between HHV-6B-specific and HCMV-specific CD4 T cells at single-cell level. The peripheral blood mononuclear cells samples were collected from normal subjects expressing HLA-DRB1*03:01. The HHV-6B-specific or HCMV-specific T cells were expanded in vitro using known HLA-DRB1*03:01 epitopes derived from HHV-6B (6 epitopes) or HCMV (1 epitope) and isolated after 12-15 days of culture using the corresponding HLA-DRB1*03:01 tetramers.

2025-11-21 | E-MTAB-16174 | biostudies-arrayexpress

Human herpesvirus 6B (HHV-6B) detection and genome-wide host expression profiles implicate HHV-6B as a pulmonary pathogen after hematopoietic cell transplantation

Project description:Human herpesvirus 6B (HHV-6B) detection and genome-wide host expression profiles implicate HHV-6B as a pulmonary pathogen after hematopoietic cell transplantation

| PRJNA1021663 | ENA

Human betaherpesvirus 6B

Project description:Human Herpes Virus 6B Infection

| PRJNA271712 | ENA

Next Generation Sequencing to determine HHV-6B Transcriptome in HCT patients with a recent viral reactivation

Project description:Purpose: The goal of this study is to determine the expression profile of HHV-6B in whole blood samples from transplant patients with HHV-6B genomes detected in plasma Methods: Viral mRNA profiles in whole blood samples of different transplant patients were generated by deep sequencing using Illumina Hiseq. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. qRT–PCR validation for U38 expression was performed using TaqMan Results: Hierarchical clustering uncovered systematic detection of U38 mRNA transcripts in whole blood samples from all patients with a detectable HHV-6B reactivation in their plasma Conclusions: Our study represents the first detailed analysis of viral transcriptomes associated with HHV-6B reactivation in whole blood samples generated by RNA-seq technology. Our results show that NGS offers a comprehensive and more accurate qualitative evaluation of mRNA content within a whole blood sample.

2018-09-08 | GSE115533 | GEO

Human betaherpesvirus 6B

Project description:Human betaherpesvirus 6B Genome sequencing and assembly

| PRJNA524981 | ENA