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Pungitius sinensis

ABSTRACT: Whole genome re-sequences of Japanese Pungitus sinensis

PROVIDER: PRJDB9072 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR200448_1.fastq.gz	Fastqsanger.gz
	DRR200448_2.fastq.gz	Fastqsanger.gz
	DRR200449_1.fastq.gz	Fastqsanger.gz
	DRR200449_2.fastq.gz	Fastqsanger.gz
	DRR200450_1.fastq.gz	Fastqsanger.gz

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Clonorchis sinensis (C. sinensis) infection remodels the chromatin accessibility of hepatocellular carcinoma

Project description:Background: Liver cancer is the third deadliest type of cancer, posing a serious threat to human health. Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer. C. sinensis, classified as a definite group I carcinogen by the IARC (International Agency for Research on Cancer), is an important risk factor for HCC. Although many studies have shown that C. sinensis infection affects the prognosis of HCC patients, the specific mechanisms are still unclear, especially the dynamics and regulatory roles of chromatin accessibility. Results: In this study, we integrated ATAC-seq, RNA-seq, and ChIP-seq data to elucidate changes in the epigenetics of HCC after the C. sinensis infection. Many different accessibility regions (DARs) were identified both in tumors and adjacent tissue after the C. sinensis infection. Meanwhile, top TFs whose motifs were enriched in DAR were found, such as HNF4a, FOXI1, etc. Although there were slight deviations, epigenetic changes were found to be consistent with gene expression levels. We also revealed that H3K9ac, H3K4me2, H3K4me3, H3K27ac, and H3K4me1 were associated with chromatin accessibility. Importantly, we also found potential evidence that C. sinensis infection would alter the spatial structure of the HCC genome. Finally, both molecular experimental results and clinical data certified that C. sinensis infection would promote the metastasis of HCC. Conclusions: C. sinensis infection will remodel the chromatin accessibility of HCC, leading to changes in gene expression levels. This study provides conclusive evidence that C. sinensis infection alters the epigenetics of HCC.

2024-11-26 | GSE276855 | GEO

Project description:Whole genome re-sequences of Japanese Tokotan stickleback populations

| PRJDB9016 | ENA

Differentially expressed genes analysis between Eupolyphaga sinensis Walker (ESW) and Taspine derivate

Project description:To gain insights into the mechanisms of Eupolyphaga sinensis Walker (ESW) and taspine derivate on inhibition to HCC, we have employed whole genome microarray expression profiling as a discovery platform to identify different genes between ESW-treated sample and control. At the same time, the differences were investigated between taspine derivate and the same control. SMMC-7721 cells were cultivated in the absence or presence of 0.1mg/mL ESWE and Taspine derivate of 2.5x10-5mol/L for 48 h, followed by the Agilent Whole Human Genome Oligo Microarray. The PLG, PKCM-NM-2 and IL3RA genes confirmation of Microarray analysis was confirmed by Real-time PCR. SMMC-7721 cells were cultivated in the absence or presence of 0.1mg/mL Eupolyphaga sinensis Walker extract (ESWE) and Taspine derivate of 2.5x10-5mol/L for 48 h, followed by the Agilent Whole Human Genome Oligo Microarray

2013-11-21 | E-GEOD-52554 | biostudies-arrayexpress

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