HBx increases chromatin accessibility and ETV4 expression to regulate Dishevelled-2 and promote HCC progression
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA776393 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR16641809_1.fastq.gz | Fastqsanger.gz | |||
| SRR16641809_2.fastq.gz | Fastqsanger.gz | |||
| SRR16641810_1.fastq.gz | Fastqsanger.gz | |||
| SRR16641810_2.fastq.gz | Fastqsanger.gz | |||
| SRR16641811_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 12 |
Similar Datasets
Project description:Purpose: The goals of this study are to invsetigate the primary biological process of HBx. Methods: Briefly, samples (L02 cells transfected with pcDNA4.0-vector or pcDNA4.0-HBx) were used to extract total RNAs for quality control and RNA-seq loading samples. RNA-seq was performed as DGE on an Illumina platform and 50 bp paired-end reads were generated (Guangzhou Epibiotek Co.,Ltd.). Results: Negative regulation of transferase activity was identified as the primary biological process according to the gene ontology (GO) analysis. TNF signaling pathway was identified as the primary biological processes according to the Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis . DNA binding transcription factor activity was identified as the primary biological processes according to the gene set enrichment analysis (GSEA). Conclusions: RNA-seq in L02 cell lines revealed that HBx mainly regulated the DNA binding transcription factor activity.
2021-11-01 | GSE186862 | GEO
Project description:Hepatitis B virus (HBV) infection is the predominant causes of hepatocellular carcinoma (HCC). HBV X protein (HBx), as the most frequently integrated viral gene sequence following HBV infection, plays a critical role in the pathogenesis of HCC. H3K27ac is a characteristic marker for identifying active enhancers and even indicates chromatin accessibility associated with super-enhancers (SEs). In this study, H3K27ac ChIP-seq was applied for high-quality SE annotation of HBx-induced SEs and chromatin accessibility evaluation. The results indicated that HBx preferentially affects enrichment of H3K27ac in transcription factor signaling pathway genes, including ETV4. RNA-seq indicated that ETV4 is upregulated by HBx and that upregulated ETV4 promotes HCC progression. Interestingly, ETV4 was also included in the 568 cancer driver gene pool obtained by the Integrative OncoGenomics pipeline. However, the biological function and mechanism of ETV4 remain incompletely understood. In vivo and in vitro, we found that increased ETV4 expression promotes HCC cell migration and invasion by upregulating DVL2 and activating Wnt/β-catenin. The mRNA and protein levels of ETV4 are higher in tumor tissues compared with adjacent tissues, and high expression of ETV4 is associated with poor prognosis in HCC patients. In summary, we first confirm that ETV4 is significantly upregulated by HBx and involved in SE-associated chromatin accessibility. Increased expression of ETV4 promotes HCC cell invasion and metastasis by upregulating DVL2. The present study provides insight into the ETV4-DVL2-β-catenin axis in HBV-related HCC, which will be helpful for treating patients with aggressive HCC.
| S-EPMC8816937 | biostudies-literature
Project description:Hepatoarcinogenesis is a slow and multistep process. We used Hepatitis B virus X antigen (HBx) induced Hepatocellular carcinoma (HCC) as model. We also identify the biomarkers, the pathways and networks underlying HCC formation in this animal model. We analyzed the events from the early, middle, and late stages, in order to predict and prevent the development of cancer. At each specific stage, we analyzed the expression level that differed at least two-fold between HBx transgenic and wild-type mouse liver. Statistical approaches were used to identify genes displaying an increasing or decreasing trend throughout hepatocarcinogenesis. The liver was excised from 6-week-, 8-month-, 12-month-, 14-month-, and 16-month-old HBx transgenic mice (A106 strain) and RNA samples were isolated. In both 14-month- and 16-month-old mice, samples were obtained from both the tumor tissue and the normal.
2010-09-16 | E-GEOD-15251 | biostudies-arrayexpress
Project description:Hepatoarcinogenesis is a slow and multistep process. We used Hepatitis B virus X antigen (HBx) induced Hepatocellular carcinoma (HCC) as model. We also identify the biomarkers, the pathways and networks underlying HCC formation in this animal model. We analyzed the events from the early, middle, and late stages, in order to predict and prevent the development of cancer. At each specific stage, we analyzed the expression level that differed at least two-fold between HBx transgenic and wild-type mouse liver. Statistical approaches were used to identify genes displaying an increasing or decreasing trend throughout hepatocarcinogenesis.
2010-09-16 | GSE15251 | GEO
Project description:Hepatitis B virus (HBV) has been clearly recognized as an etiological factor for hepatocellular carcinoma (HCC). HBV encodes the potentially oncogenic HBx protein. We aimed to elucidate the molecular mechanism of HCC caused by HBx and to discover the biomarker related to HCC by HBx. Three experimental groups, 3, 9 and 13 month aged HBx Tg mice and age matched normal wild type B6 mouse which have same background of HBx Tg mice were used to find differentially expressed genes during HCC. Keywords: Genetic modification 3-month-old, 9-month-old, 13-month-old wild type B6 mice vs 3-month-old, 9-month-old, 13-month-old HBx transfected mice; Biological replicates at each timepoint; 9 controls vs 9 HBx-mice
2010-06-19 | E-GEOD-12723 | biostudies-arrayexpress
Project description:Hepatitis B virus (HBV) has been clearly recognized as an etiological factor for hepatocellular carcinoma (HCC). HBV encodes the potentially oncogenic HBx protein. We aimed to elucidate the molecular mechanism of HCC caused by HBx and to discover the biomarker related to HCC by HBx. Three experimental groups, 3, 9 and 13 month aged HBx Tg mice and age matched normal wild type B6 mouse which have same background of HBx Tg mice were used to find differentially expressed genes during HCC. Keywords: Genetic modification
2008-09-11 | GSE12723 | GEO
Project description:Hepatocellular carcinoma (HCC) is mainly associated with chronic hepatitis B virus infection. Hepatitis B virus X protein (HBx) is closely related to the occurrence of liver cancer. To explore the molecular mechanism by which HBx affects the occurrence of hepatocellular carcinoma, we established a stable HCC cell line HepG2-HBx expressing HBx and analyzed the transcriptome profile by RNA-seq.
2025-07-02 | GSE276530 | GEO
Project description:In large cohort studies, several HBx mutants were identified as independent risk factors for HCC risk.In order to study the carcinogenic mechanism between different mutants, HeLa cell lines expressing wild type and different mutated HBx proteins were constructed. We used microarrays to describe gene expression in HeLa cells stably expressing the wild-type HBx and the four mutant HBx, and to identify distinct classes of up-regulated genes.
2022-03-02 | GSE179126 | GEO
Project description:A genome-wide integrated ChIP-seq analysis of the early stage of hepatocellular carcinoma development that induced by HBx. The HBV x (HBx) protein, which plays a critical role in the development of HCC, was shown to interact with several epigenetic factors, such as DNMT3A and HDAC1. Most HBx transgenic (TG) mice spontaneously develop HCC at about 1 year of age, providing genetic validation of the oncogenic potential of HBx even in the absence of viral integration and chronic inflammation. Therefore, it would be intriguing to study the regulatory role of HBx in the epigenome and its impact on HCC development. We performed a genome-wide analysis to examine the differences in histone modification and RNA pol II enrichment pattern between cancer and normal liver cells.
2019-01-20 | GSE77023 | GEO
Project description:A genome-wide integrated DNA methylation analysis of the early stage of hepatocellular carcinoma development that induced by HBx. The HBV x (HBx) protein, which plays a critical role in the development of HCC, was shown to interact with several epigenetic factors, such as DNMT3A and HDAC1. Most HBx transgenic (TG) mice spontaneously develop HCC at about 1 year of age, providing genetic validation of the oncogenic potential of HBx even in the absence of viral integration and chronic inflammation. Therefore, it would be intriguing to study the regulatory role of HBx in the epigenome and its impact on HCC development. We performed a genome-wide analysis to examine the differences in DNA methylation enrichment pattern between cancer and normal liver cells.
2019-01-21 | GSE77059 | GEO