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Genome-wide BRD4 occupancy upon expression of YFV capsid in Huh-7 cells

ABSTRACT: Genome-wide BRD4 occupancy upon expression of YFV capsid in Huh-7 cells

PROVIDER: PRJNA637227 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR11922875.fastq.gz	Fastqsanger.gz
	SRR11922876.fastq.gz	Fastqsanger.gz
	SRR11922877.fastq.gz	Fastqsanger.gz
	SRR11922878.fastq.gz	Fastqsanger.gz
	SRR11922879.fastq.gz	Fastqsanger.gz

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Genome-wide BRD4 occupancy upon expression of YFV capsid in Huh-7 cells

Project description:We generated genome-wide ChIP-seq binding profiles of BRD4 to analyze the role of YFV capsid lysine residues in the levels of BRD4 on chromatin

2020-11-10 | GSE151772 | GEO

Chromatin accessibility analysis of Huh7 cells upon YFV capsid expression

Project description:ATACseq analysis of chromatin accessibility in Huh7 cells upon YFV capsid expression

2020-11-15 | GSE152623 | GEO

YFV Capsid changes to mRNA transcriptome of Huh7 cells

Project description:Genome-wide analysis of changes to mRNA transcript levels upon expression of YFV capsid in Huh7 cells

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YFV Capsid changes to mRNA transcriptome of Huh7 cells

Project description:YFV Capsid changes to mRNA transcriptome of Huh7 cells

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Chromatin accessibility analysis of Huh7 cells upon YFV capsid expression

Project description:Chromatin accessibility analysis of Huh7 cells upon YFV capsid expression

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The yellow fever virus capsid protein is a potent suppressor of RNA silencing that binds double stranded RNA.

Project description:In this study, we describe a viral suppressor of RNA silencing encoded by the prototype flavivirus, yellow fever virus (YFV). We show that the YFV capsid protein inhibits RNA silencing in the mosquito Aedes aegypti by interfering with Dicer. These results suggest a molecular arms race between vector and pathogen underlies the continued existence of flaviviruses in nature.

2017-01-04 | GSE80691 | GEO

Expression data from Rhesus immune cells responding to YFV

Project description:Immune response to infection involves the regulation of numerouse genes in numerous cell types. The number and type of genes that become differentially expressed in response to infection can result in very different pathophysiologic presentations and disease course. Wild type YFV and 17D despite having very few genetic differences result in very different disease outcomes in human and monkey hosts. We used microarrays to detail the global programme of gene expression of Rhesus macaque immune cells responding to both wild type and 17D strains of YFV. We identified distinct classes of gene expression as well as marked differences in differential gene expression between responses to 17D and wild type strains of YFV. Rhesus PBMC were isolated before and on day 3 of either vaccination with 17D or infection with wild type YFV with an n of 3 per group. Total RNA was extracted and hybridized on Affymetrix microarrays.

2014-10-22 | E-GEOD-51972 | biostudies-arrayexpress

RNAseq analysis of BDAA treatment on YFV infected HEK293 cells

Project description:Purpose: to investigate the change in gene expression after BDAA treatment on YFV infected HEK293 cells. Methods: HEK293 cells were cultured; then cells were non-infected/infected with YFV, and then untreat/treat with BDAA. Total RNA were harvested and sent to RNA sequencing. Results: we demonstrated that BDAA treatment of YFV infected HEK293 cells at 18 hpi for 2 h increased expression of a total of 39 cellular genes, 33 of which are inflammatory cytokines, chemokines or ISGs, and the remaining are mostly genes related to NFκB, TNF-α and MAPK signal transduction. Conclusion: BDAA triggers an enhanced activation of RNA sensor-mediated inflammatory cytokine responses, most likely by YFV RNA.

2021-03-04 | GSE168183 | GEO

Genome-wide occupancy of ZRF1 and BRD4 in neuroblastoma cells.

Project description:Genome-wide occupancy of ZRF1 and BRD4 in neuroblastoma cells.

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Genome-wide occupancy of ZRF1 and BRD4 in neuroblastoma cells.

Project description:Neuroblastoma (NB), a malignant embryonic tumor arising from primitive neural crest cells, accounts for more than 7% of malignancies and around 15% of cancer-related mortality in childhood. Better elucidating the mechanisms of tumorigenesis and aggressiveness is important for improving the therapeutic efficiencies of NB. Through integrated proteomics and validating studies, we discovered that ZRF1 and BRD4 form a complex with p113, a novel protein derived from CUX1 circular RNA. To investigate the mechanisms underlying the oncogenic functions of ZRF1 and BRD4, we employed the Illumina Novaseq 6000 as a discovery platform to analyze the genome-wide occupancy of ZRF1 and BRD4 on target genes in human SH-SY5Y cells, while the results were further analyzed with p113-regulated target genes. The results showed that 46 target genes were regulated by transcriptional trimer complex p113/ZRF1/BRD4, especially those involved in metabolic pathway or complex I biogenesis, including ALDH3A1, NDUFA1, and NDUFAF5. Furthermore, we validated the ChIP-seq results by real-time PCR with high identity. Overall, our results provided fundamental information about the genomic enrichment of ZRF1 and BRD4 in human NB cells, and these findings will help us understand the pathogenesis of NB.

2021-10-06 | GSE182402 | GEO

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