Identification of hub genes in peripheral blood mononuclear cells for the diagnosis of hepatocellular carcinoma using a weighted gene co‑expression network analysis

Ye, Zi; Zeng, Zhirui; Shen, Yiyi; Chen, Zubing

doi:10.3892/etm.2020.8736

Cited by 7 publications

(6 citation statements)

References 28 publications

(31 reference statements)

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“…43 In a recent bioinformatic study, C8B in peripheral blood mononuclear cells was found to have no significance in relation to normal and HCC patients, and the diagnostic value of C8B for HCC was not satisfied. 44 Unfortunately, very little research has focused on the correlations between C8B and cancer survival. Our results using the multiple analysis approach demonstrated that C8B downregulation in tumor tissues accounts for unfavorable OS and RFS in HCC patients.…”

Section: Discussionmentioning

confidence: 99%

C8B in Complement and Coagulation Cascades Signaling Pathway is a predictor for Survival in HBV-Related Hepatocellular Carcinoma Patients

Zhang

Chen

Cao

et al. 2021

CMAR

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The role of the complement and coagulation cascades signaling pathway in the pathogenesis of cancers remains uncertain. This study aimed to investigate the associations between enriched differentially expressed genes (DEGs) in this pathway and hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC) patients. Materials and Methods: Clinical and gene expression data of the Gene Expression Omnibus (GEO) series profile GSE14520 were downloaded. The "Limma" package was used to screen the DEGs and the "clusterProfiler" package was used to identify the complement and coagulation cascades pathway and enriched significant genes. Cox regression analysis, the Kaplan-Meier method, and the nomogram model were used to address the correlations between significantly enriched DEGs in the complement and coagulation cascades pathway and HCC survival. Results: A total of 220 HBV-related HCC patients were enrolled in this study. The complement and coagulation cascades pathway was significantly enriched by 37 DEGs (p-value < 0.05 and adjusted p-value < 0.05). Complement 8 beta chain (C8B) expression levels had protective effects on overall survival (OS) and recurrence-free survival (RFS) in HBV-related HCC patients. High levels of C8B contributed to favorable OS and RFS in this population (both p < 0.01), even after adjustment of clinicopathological characteristics including tumor node metastasis (TNM) staging, Barcelona Clinic liver cancer (BCLC) staging, gender, and fibrinogen beta chain (FGB) expression (all p < 0.05). Conclusion: C8B in the complement and coagulation cascades signaling pathway serves as a predictive candidate for survival in HBV-related HCC patients.

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Section: Discussionmentioning

confidence: 99%

C8B in Complement and Coagulation Cascades Signaling Pathway is a predictor for Survival in HBV-Related Hepatocellular Carcinoma Patients

Zhang

Chen

Cao

et al. 2021

CMAR

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“…The different colours of the cluster branches represent different gene modules. Finally, module membership (MM) and genetic significance (GS) were calculated to relate the modules to the clinical features ( 18 , 19 ).…”

Section: Methodsmentioning

confidence: 99%

Identification of pyroptosis‑related genes in neuropathic pain based on bioinformatics analysis

Zhang

Shi

et al. 2022

Exp Ther Med

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Pyroptosis is defined as inflammation-induced programmed cell death. However, gene expression levels related to pyroptosis and their role in neuropathic pain (NP) remain unclear. The present study aimed to develop and validate an NP-predictive signature based on the genes associated with pyroptosis. Gene expression level profiles were downloaded from the Gene Expression Omnibus database. Weighted gene co-expression network analysis was used to identify the pyroptotic genes most highly associated with NP. NP-related pyroptosis gene signature was constructed using multivariate logistic regression. A rat model of neuropathic pain was established through chronic constriction injury to analyse the inflammatory infiltration and myelin damage around the sciatic nerve, and examine the expression levels of macrophage markers S100 calcium-binding protein β (S100β) and ionized calcium-binding adapter molecule 1 (Iba-1). Finally, flow cytometry analysis was used to examine the lipopolysaccharide (LPS)-induced cell death ratio of RSC96 cells (Schwann cells), while the expression levels of LPS-induced pyroptosis-related genes in RSC96 cells were measured via reverse transcription-quantitative PCR. The results demonstrated that pyroptosis-related genes (gasdermin D, NLR family pyrin domain containing 3, neuronal apoptosis inhibitory protein and NLR family CARD domain containing 4) were identified to increase the risk of NP. NP-related pyroptosis signatures were constructed based on these four genes. Moreover, the high-risk group had a higher level of macrophage infiltration compared with the low-risk group, as determined by the CIBERSORT algorithm. H&E staining results showed that the myelin structure of the sciatic nerve tissue of chronic constriction injury (CCI) rats was destroyed and inflammatory cells infiltrated around neurons. The results of immunohistochemistry showed that compared with in the sham group, the expression levels of Iba-1 and sS100β in the sciatic nerve of the CCI group were increased. Furthermore, the expression levels of cell death and pyroptosis-related genes in Schwann cells induced by LPS were increased compared with in the control group. In conclusion, an NP-related pyroptosis gene signature was constructed based on four pyroptosis-related genes and it was found that the expression of pyroptosis-related genes was upregulated in the early steps of the neuroinflammatory process in RSC96 cells.

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“…SPARC regulates osteoblast mineralization through the p38 MAPK pathway (Zhu, 2020). Expression levels of SPARC and SPARCL-1 are substantially elevated in Glu-induced hippocampal neuronal injury (Agostina et al, 2021), and SPARC and SPARCL-1 regulated autophagy through the AKT-mTOR pathway to affect Glu-induced hippocampal neuron injury (Chen, 2020). SPARC is involved in VEGF-induced fibrosis in HTF cells, and it will be a new therapeutic opportunity for antifibrotic strategies after the completion of filtration surgery (Xiang and Tang, 2018).…”

Section: Expression and Regulation Of Sparcmentioning

confidence: 99%

“…Increased tumor volume of HCC in nude mice is supported by the overexpression of SPARC (Jiang et al, 2019). SPARC was also a central gene with significant diagnostic value (Ye et al, 2020). The follistatin-like domain of the SPARC protein decreased the level of E-cadherin expression (Sun et al, 2018).…”

Section: Role Of Sparc In Hepatocellular Carcinomamentioning

confidence: 99%

SPARC: a potential target for functional nanomaterials and drugs

Jiang

Sun

et al. 2023

Front. Mol. Biosci.

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Secreted protein acidic and rich in cysteine (SPARC), also termed osteonectin or BM-40, is a matricellular protein which regulates cell adhesion, extracellular matrix production, growth factor activity, and cell cycle. Although SPARC does not perform a structural function, it, however, modulates interactions between cells and the surrounding extracellular matrix due to its anti-proliferative and anti-adhesion properties. The overexpression of SPARC at sites, including injury, regeneration, obesity, cancer, and inflammation, reveals its application as a prospective target and therapeutic indicator in the treatment and assessment of disease. This article comprehensively summarizes the mechanism of SPARC overexpression in inflammation and tumors as well as the latest research progress of functional nanomaterials in the therapy of rheumatoid arthritis and tumors by manipulating SPARC as a new target. This article provides ideas for using functional nanomaterials to treat inflammatory diseases through the SPARC target. The purpose of this article is to provide a reference for ongoing disease research based on SPARC-targeted therapy.

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Identification of hub genes in peripheral blood mononuclear cells for the diagnosis of hepatocellular carcinoma using a weighted gene co‑expression network analysis

Cited by 7 publications

References 28 publications

C8B in Complement and Coagulation Cascades Signaling Pathway is a predictor for Survival in HBV-Related Hepatocellular Carcinoma Patients

C8B in Complement and Coagulation Cascades Signaling Pathway is a predictor for Survival in HBV-Related Hepatocellular Carcinoma Patients

Identification of pyroptosis‑related genes in neuropathic pain based on bioinformatics analysis

SPARC: a potential target for functional nanomaterials and drugs

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