Identifying significant pathways of hepatitis B virus-related hepatocellular carcinoma based on crosstalk and network pathways

Li, Wen; Wu, Wenhao; Peng, Xinyu

doi:10.4238/gmr.15028343

Cited by 3 publications

(4 citation statements)

References 39 publications

(39 reference statements)

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“…In this study, an LDA score of 4 was set as the threshold. In addition, to determine the taxonomic relations between bacterial communities in the gut bacteria, the relationship between OTUs was analyzed by Spearman correlation coefficient and R (v3.6.0) software, and the co-occurrence analysis was performed with Cytoscape ( Wen et al, 2016 ). Functional-gene profile was inferred with software package Phylogenetic Investigation of Communities by Reconstruction of Unobserved States (PICRUSt) based on 16S rRNA gene cluster survey along the samples accompanied by its relative abundance in each of the samples.…”

Section: Methodsmentioning

confidence: 99%

Gut Bacterial Composition and Functional Potential of Tibetan Pigs Under Semi-Grazing

et al. 2022

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Gut bacterial community plays a key role in maintaining host health. The Tibetan pig (Sus scrofa), an ancient breed in China, has been known for its high adaptability to harsh environments and for its meat quality. To understand the underlying mechanisms facilitating to shape these unique features, in this study, 16S rRNA sequencing using pigs feces and subsequent bacterial functional prediction were performed. Also, the gut bacteria of two other breeds of pigs, Barkshire and Landrace, were examined for comparison. It was revealed that the structure of bacterial community in Tibetan pigs appeared to be more complex; the relative abundances of dominant bacterial families varied inversely with those of the other pigs, and the proportion of Firmicutes in Tibetan pigs was lower, but Bacteroides, Fibrobacterota, Lachnospiraceae, Oscillospiraceae, and Ruminococcaceae were higher. Bacterial functional prediction revealed that the dominant flora in the Tibetan pigs was more correlated with functions regulating the hosts’ immune and inflammatory responses, such as NOD-like_receptor_signaling_pathway and vitamin metabolism. In addition, in Tibetan pigs, the taxonomic relationships in the gut bacteria on day 350 were closer than those on earlier stages. Furthermore, gender played a role in the composition and function of bacterial inhabitants in the gut; for boars, they were more correlated to drug resistance and xenobiotics metabolism of the host compared to the sows. In sum, our preliminary study on the gut bacterial composition of the Tibetan pigs provided an insight into the underlying host–microorganism interactions, emphasizing the role of intestinal bacteria in the context of modulating the host’s immune system and host development.

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Section: Methodsmentioning

confidence: 99%

Gut Bacterial Composition and Functional Potential of Tibetan Pigs Under Semi-Grazing

et al. 2022

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“…89 These findings demonstrated that NTN1 increases downstream signalling pathways in hypoxic HCC cells, resulting in EMT activation and the generation of several inflammatory mediators that promote cancer invasion. In addition, Wen et al 90 constructed a pathway network that comprise the miRNA target genes associated with HBV-associated HCC. Among them, the most weight value of NTN1 in signalling pathway and regulation of frizzled proteins (FZD) by ubiquitination, at 0.228.…”

Section: Hepatocellular Carcinomamentioning

confidence: 99%

“…In addition, Wen et al. 90 constructed a pathway network that comprise the miRNA target genes associated with HBV‐associated HCC. Among them, the most weight value of NTN1 in signalling pathway and regulation of frizzled proteins (FZD) by ubiquitination, at 0.228.…”

Section: Netrins and Tumoursmentioning

confidence: 99%

Research progress of the netrins and their receptors in cancer

Gao,

Ye,

Huang

et al. 2024

J Cellular Molecular Medi

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Netrins, a family of secreted and membrane‐associated proteins, can regulate axonal guidance, morphogenesis, angiogenesis, cell migration, cell survival, and tumorigenesis. Four secreted netrins (netrin 1, 3, 4 and 5) and two glycosylphosphatidylinositols‐anchored membrane proteins, netrin‐G1 and G2, have been identified in mammals. Netrins and their receptors can serve as a biomarker and molecular therapeutic target for pathological differentiation, diagnosis and prognosis of malignant cancers. We review here the potential roles of the netrins family and their receptors in cancer.

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“…In recent years, miRNA and mRNA expression profile studies have identified a large number of genes with differential expression in HCC (14)(15)(16)(17)(18)(19)(20)(21)(22)(23)(24)(25). Numerous differentially expressed miRNAs and mRNAs have been identified to be involved in the occurrence and development of HCC, and thus may be potential prognostic and diagnostic markers (17,26).…”

Section: Introductionmentioning

confidence: 99%

Identification of miRNA and mRNA expression profiles by PCR microarray in hepatitis B virus‑associated hepatocellular carcinoma

2018

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The present study aimed to identify differentially expressed microRNAs (miRNAs) and mRNAs in hepatitis B virus-associated hepatocellular carcinoma (HCC). A total of five HCC tissues and paired adjacent non-tumor tissues were screened to identify the differentially expressed miRNAs and target mRNAs using polymerase chain reaction microarrays. The interaction between differential miRNA and mRNA expression was concurrently analyzed using bioinformatics methods. A total of 32 differentially expressed miRNAs (four upregulated miRNAs and 28 downregulated miRNAs) and 16 differentially expressed mRNAs (11 upregulated mRNAs and five downregulated mRNAs) were identified. Among these, upregulated hsa-miRNA (miR)-96-5p and hsa-miR-18b-5p suppressed their target mRNAs forkhead box O1 and MET transcriptional regulator MACC1 (MACC1). Downregulation of hsa-miR-199a-5p led to upregulation of its target mRNAs, cyclin dependent kinase 4 and insulin like growth factor 2 (IGF2). The high-level expression of IGF2 mRNA and cyclin E1 mRNA was due to the low-level expression of hsa-miR-145-5p, hsa-miR-181a-5p, hsa-miR-199a-5p and hsa-miR-223a-3p, and hsa-miR-26a-5p and hsa-miR-26b-5p, respectively. The low-level expression of coronin 1A mRNA and MACC1 mRNA was due to overexpression of hsa-miR-517a-3p and hsa-miR-18a-5p, and hsa-miR-18b-5p, respectively. Numerous gene ontology terms were associated with oncogenesis. The most enriched pathways targeted by the dysregulated miRNAs and mRNAs were associated with cancer and oncogenesis pathways. The present data suggested that differential miRNA and mRNA expression is present in HCC. Thus, interactions between certain miRNAs and mRNAs may be involved in the pathogenesis of HCC.

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Identifying significant pathways of hepatitis B virus-related hepatocellular carcinoma based on crosstalk and network pathways

Cited by 3 publications

References 39 publications

Gut Bacterial Composition and Functional Potential of Tibetan Pigs Under Semi-Grazing

Gut Bacterial Composition and Functional Potential of Tibetan Pigs Under Semi-Grazing

Research progress of the netrins and their receptors in cancer

Identification of miRNA and mRNA expression profiles by PCR microarray in hepatitis B virus‑associated hepatocellular carcinoma

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