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Dipteronia sinensis

ABSTRACT: Dipteronia sinensis Transcriptome or Gene expression

PROVIDER: PRJNA290987 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2127986_1.fastq.gz	Fastqsanger.gz
	SRR2127986_2.fastq.gz	Fastqsanger.gz

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Dipteronia sinensis

Project description:Dipteronia sinensis Organism overview

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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

Transcriptome-wide N6-Methyladenosine (m6A) modifications in Anopheles sinensis

Project description:We profile transcriptome-wide m6A in female and male Anopheles sinensis and reveal that m6A is also a highly conserved modification of mRNA in mosquitoes were generated by deep sequencing, in triplicate, using illumina Novaseq™ 6000. Distinct from mammals and yeast, but similar to Arabidopsis thaliana, m6A in An. sinensis is enriched not only around the stop codon and within 3’-untranslated regions, but also around the start codon and 5’-UTR. Gene ontology analysis indicates that the unique distribution pattern of m6A in An. sinensis is associated with mosquito sex-specific pathways. In addition, the positive correlation between m6A deposition and mRNA abundance indicates that m6A can play roles in regulating gene expression in mosquitoes. Our study proposed a transcriptional regulatory network of m6A in An. sinensis, which may provide a new clue for the control of this disease-transmitting vector.

2022-05-18 | GSE193379 | GEO

microRNA profile of adult female Anopheles sinensis

Project description:We investigate the global miRNA expression profile of An. sinensis using illumine Hiseq 2000 sequencing.The annotation and prediction of miRNAs lays the foundation for the further functional study of An. sinensis miRNAs and will facilitate their application in vector control.

2018-09-27 | GSE109005 | GEO

Transcriptome profiling of five mixed tissues for juvenile Eriocheir sinensis

Project description:The transcriptome profiling five tissues of juvenile Eriocheir sinensis, including gill, muscle, thoracic ganglion, eyestalk and hepatopancreas, were sequenced to get the basic dataset for constructed a genome-scale metabolic network model for E. sinensis. The model was used to predict the optimal nutrient requirements of E. sinensis in feed and suggestions for feed improvement were put forward based on the simulation results.

2022-06-30 | GSE182818 | GEO

Transcriptome analysis of the litchi fruit borer (Conopomorpha sinensis)

Project description:Purpose: transcriptome sequencing of Conopomorpha sinensis Methods: high-through Illumina HiSeqTM 2000 Results:66017 transcripts,35383 unigenes Conclusions:This study provided valuable transcriptome data for the litchi fruit borer, which was the first fundamental genomic basis for exploiting gene resources from the litchi fruit borer

2018-03-03 | GSE67194 | GEO

Human cholangiocarcinoma cells treated with Clonorchis sinensis excretory-secretory products.

Project description:Clonorchiasis is associated with bile duct malignancy and the subsequent development of cholangiocarcinoma. Although this is likely caused by adult Clonorchis sinensis and its excretory-secretory products (ESP), the precise molecular mechanisms remain obscure. To evaluate the effect of C. sinensis infection on differential gene expression in host hepatocytes, we used cDNA microarrays in human cholangiocarcinoma cells through the mimicking of C. sinensis infestation, and analyzed differential mRNA expression patterns of host cells. Keywords: Time course

2008-07-24 | GSE12213 | GEO

Camellia sinensis var. sinensis

Project description:Camellia sinensis var. sinensis Transcriptome or Gene expression

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Camellia sinensis var. sinensis

Project description:Camellia sinensis var. sinensis Transcriptome or Gene expression

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Camellia sinensis var. sinensis

Project description:Camellia sinensis var. sinensis Transcriptome or Gene expression

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