The regulatory role of microRNA-mRNA co-expression in hepatitis B virus-associated acute liver failure

Pan, Kanda; Wang, Yunchao; Pan, Ping-Ying; Xu, Guanhua; Mo, Lujiao; Cao, Liang; Wu, Channi; Shen, Xiaoyuan

doi:10.1016/j.aohep.2019.07.007

Cited by 8 publications

(6 citation statements)

References 44 publications

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“…Although no studies have confirmed the relationship between RP11-488P3.1, miR-1271-5p, and ARNT2, we hypothesized that the regulatory mechanism of ARNT2 and miR-1271-5p may affect the innate immune phenotype of FGR based on the above findings. In addition, miR-3175 participates in the MAPK-related signaling pathway, whereas MAP3K9 is an upstream activator of MAPK signaling [35,36]. Choi et al also found the immunoreactivity of MAPK signaling in FGR rats [37].…”

Section: Discussionmentioning

confidence: 99%

Integrative analysis of the immune-related ceRNA network in fetal growth restriction based on weighted gene co-expression network analysis

Zhao

2022

Arch Gynecol Obstet

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Immune disorders lead to placental dysfunction and fetal growth restriction (FGR), but current research on the immune regulation mechanisms of FGR is insufficient. Therefore, this study aimed to construct an immune-related competing endogenous RNA (ceRNA) network to predict FGR onset risk. Methods: Based on microarray data from the GEO database, CIBERSORT was used to analyze immune cell infiltration. Weighted gene co-expression network analysis (WGCNA) was used to screen immune-related module genes with differential expression (DE) in FGR. A ceRNA network was constructed by integrating long non-coding RNA (lncRNA)-mRNA co-expression relations, lncRNA-microRNA (miRNA) relations, and miRNA-mRNA negative regulatory relations. The diagnostic values of key genes in the network and their relationships with immune cell infiltration were 2 further validated. Results: By comparing FGR and normal samples, 442 DE mRNAs, 57 DE miRNAs, and 241 DE lncRNAs were obtained. Furthermore, four types of immune cells exhibited significantly different infiltration levels. WGCNA revealed 236 immune-related DE mRNAs that were involved in hormone secretion and immune cell differentiation. We then constructed a ceRNA network comprising 16 lncRNAs, 16 miRNAs, and 21 mRNAs through co-expression analysis and miRNA prediction.Receiver operating characteristic curves confirmed the superior predictive performance of key genes in the network for FGR. The validation dataset confirmed the increased infiltration of M1 macrophages in FGR samples and their positive correlations with NEURL1 and ODF3B expression. Conclusion:We constructed an immune-related ceRNA regulatory network wherein key genes are positively correlated with M1 macrophage infiltration and can be used for FGR diagnosis.

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Section: Discussionmentioning

confidence: 99%

Integrative analysis of the immune-related ceRNA network in fetal growth restriction based on weighted gene co-expression network analysis

Zhao

2022

Arch Gynecol Obstet

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“…The idea of using molecular biomarkers instead of traditional ones for the patient's follow-up arises from the promising versatility of microRNAs during the development of chronic HBV infection. MiR-55-5p, miR-193b-5p, miR-200b-3p and miR-3175 were recently studied as molecules involved in cellular pathways such as PI3K/AKT [31] ("phosphatidylinositol-3-kinase" [32]/"protein kinase B" [33]), Ras [31] ("Rat sarcoma" [34]), MAPK [31] ("mitogen-activated protein kinase" [35]). Such pathways were related to the development of acute-on-chronic liver failure associated with HBV [31].…”

Section: Discussionmentioning

confidence: 99%

“…MiR-55-5p, miR-193b-5p, miR-200b-3p and miR-3175 were recently studied as molecules involved in cellular pathways such as PI3K/AKT [31] ("phosphatidylinositol-3-kinase" [32]/"protein kinase B" [33]), Ras [31] ("Rat sarcoma" [34]), MAPK [31] ("mitogen-activated protein kinase" [35]). Such pathways were related to the development of acute-on-chronic liver failure associated with HBV [31]. HBx downregulated the cellular expression of miR-122 in studies involving cell cultures performed on samples collected from HBV-HCC patients [36].…”

Section: Discussionmentioning

confidence: 99%

A MicroRNA-Based Method for High-Viremia Detection—A New Approach on a Romanian Lot of Chronically Infected Patients with Hepatitis B Virus

Manea,

Apostol,

Constantinescu

2023

Diagnostics

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The HBV (hepatitis B virus) infection is intended for elimination, but evaluating patients is both costly and insufficiently applied in several countries. An expensive analysis in Romania is HBV-DNA quantification, with a limited prognostic potential. Our study intended to find new predictors for high viremia in HBV patients, using molecules involved in the multiple assessment of various HBV complications, such as microRNAs. A total of 61 subjects (48 patients with chronic HBV infection and 13 healthy subjects) were generally evaluated. Using a RT-PCR method, with a 2−ΔΔCT algorithm, we detected the expressions of miR-122 and miR-146a in 33 subjects. MiR-21 was the internal control. The results were analyzed with the R 4.2.2. software. Kruskal–Wallis’s comparisons, Spearman correlations, and several logistic regression methods were applied. The median age of the patients was over 40 years. Without microRNAs, we could not obtain a good prediction formula. The combination of miR-122 and age proved to be the best prediction method for high viremia, with an AUC of 0.827, and a sensitivity of 89.5%. This is the first study which included age and miR-122 as independent predictors for high viremia in Romanian HBV-positive patients. MiR-122 is a new potential biomarker in the evaluation of Romanian patients.

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“…Thanks to this study, genes involved in the innate immune system and defense to virus were revealed. Finally, in the work by Pan et al [ 44 ], a co-expression network is constructed based on differentially-expressed microRNAs and genes identified in liver tissues from patients with hepatitis B virus (HBV). This study provides new insights on how microRNAs take part in the molecular mechanism underlying HBV-associated acute liver failure.…”

Section: Related Workmentioning

confidence: 99%

Computational Analysis of the Global Effects of Ly6E in the Immune Response to Coronavirus Infection Using Gene Networks

Delgado-Chaves

Gómez-Vela

Divina

et al. 2020

Genes

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Gene networks have arisen as a promising tool in the comprehensive modeling and analysis of complex diseases. Particularly in viral infections, the understanding of the host-pathogen mechanisms, and the immune response to these, is considered a major goal for the rational design of appropriate therapies. For this reason, the use of gene networks may well encourage therapy-associated research in the context of the coronavirus pandemic, orchestrating experimental scrutiny and reducing costs. In this work, gene co-expression networks were reconstructed from RNA-Seq expression data with the aim of analyzing the time-resolved effects of gene Ly6E in the immune response against the coronavirus responsible for murine hepatitis (MHV). Through the integration of differential expression analyses and reconstructed networks exploration, significant differences in the immune response to virus were observed in Ly6E Δ H S C compared to wild type animals. Results show that Ly6E ablation at hematopoietic stem cells (HSCs) leads to a progressive impaired immune response in both liver and spleen. Specifically, depletion of the normal leukocyte mediated immunity and chemokine signaling is observed in the liver of Ly6E Δ H S C mice. On the other hand, the immune response in the spleen, which seemed to be mediated by an intense chromatin activity in the normal situation, is replaced by ECM remodeling in Ly6E Δ H S C mice. These findings, which require further experimental characterization, could be extrapolated to other coronaviruses and motivate the efforts towards novel antiviral approaches.

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The regulatory role of microRNA-mRNA co-expression in hepatitis B virus-associated acute liver failure

Cited by 8 publications

References 44 publications

Integrative analysis of the immune-related ceRNA network in fetal growth restriction based on weighted gene co-expression network analysis

Integrative analysis of the immune-related ceRNA network in fetal growth restriction based on weighted gene co-expression network analysis

A MicroRNA-Based Method for High-Viremia Detection—A New Approach on a Romanian Lot of Chronically Infected Patients with Hepatitis B Virus

Computational Analysis of the Global Effects of Ly6E in the Immune Response to Coronavirus Infection Using Gene Networks

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