Weighted genes associated with the progression of retinoblastoma: Evidence from bioinformatic analysis

Zhou, Wei; Guan, Wei; Zhou, Yutong; Rao, Yuqing; Ji, Xunda; Li, Jing

doi:10.1016/j.exer.2021.108730

Cited by 8 publications

(6 citation statements)

References 26 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Chen et al found that miR-495-3p inhibited multidrug resistance in gastric cancer by regulating autophagy through the GRP78/mTOR axis [ 23 ]. There are also reports that miR-495-3p targets TGFβR1, TGFβR2, SMAD4 and BUB1 [ 24 ]. To the best of our knowledge, few researchers have reported the specific role and mechanism of miR-495-3p and its relationship with HMGB1 in CRC.…”

Section: Discussionmentioning

confidence: 99%

miR-495-3p depresses cell proliferation and migration by downregulating HMGB1 in colorectal cancer

Zhang

Zheng

et al. 2022

World J Surg Onc

View full text Add to dashboard Cite

Background MicroRNAs play an important role in the genesis and progression of tumours, including colorectal cancer (CRC), which has a high morbidity and mortality rate. In this research, the role of miR-495-3p and HMGB1 in CRC was investigated. Methods We performed qRT-PCR to detect the expression of miR-495-3p in colorectal cancer tissues and cell lines. Functional experiments, such as CCK-8, EdU, Transwell and apoptosis assays, were conducted to explore the effects of miR-495-3p on the proliferation, migration and apoptosis of CRC cells in vitro. Then, database prediction, dual-luciferase reporter gene assays and functional experiments verified the role of the miR-495-3p target gene HMGB1 in CRC. Finally, rescue experiments were performed to investigate whether overexpression of HMGB1 could reverse the inhibitory effect of miR-495-3p on CRC cell proliferation in vivo and in vitro. Results miR-495-3p was downregulated in colorectal cancer tissues and cell lines, inhibited the proliferation and migration of colorectal cancer cells and promoted cell apoptosis. Database prediction and dual-luciferase reporter gene assays showed that HMGB1 was the downstream target gene of miR-495-3p. We finally demonstrated that miR-495-3p inhibited CRC cell proliferation by targeting HMGB1 in vitro and in vivo. Conclusion Our research shows that miR-495-3p inhibits the progression of colorectal cancer by downregulating the expression of HMGB1, which indicates that miR-495-3p may become a potential therapeutic target for colorectal cancer.

show abstract

Section: Discussionmentioning

confidence: 99%

miR-495-3p depresses cell proliferation and migration by downregulating HMGB1 in colorectal cancer

Zhang

Zheng

et al. 2022

World J Surg Onc

View full text Add to dashboard Cite

show abstract

“…PCDHB6 controls the composition of milk proteins, which in turn improves the quality of milk [10]. According to previous tumor-related reports, by Bioinformatics analysis showed that high expression of PCDHB6 gene in retinoblastoma [11]. In contrast, comprehensive pan-cancer analysis of PCDHB6 in gastric cancer has not been reported.…”

Section: Discussionmentioning

confidence: 92%

Bioinformatics study of PCDHB6 as a prognostic marker for gastric cancer

Huang

Liang

Wei

et al. 2022

Preprint

View full text Add to dashboard Cite

Background Gastric cancer is a common and fatal disease with the highest incidence and mortality in men. Protocadherin beta 6 (PCDHB6) has not been reported much in tumors and the role of PCDHB6 in gastric cancer is not yet clear. Therefore, we aimed to investigate the expression of PCDHB6 in gastric cancer infiltration, invasion and metastasis and to assess the prognostic and functional significance of PCDHB6 in gastric cancer. Methods Based on TCGA, GEO database, bioinformatics analysis of PCDHB6 gene was performed from gene expression, survival analysis, gene mutation, immune infiltration, DNA methylation and enrichment analysis. In addition, Real-Time PCR was used to further confirm the role of PCDHB6 in gastric cancer. Results PCDHB6 gene was highly expressed in gastric cancer and positively correlated with poor patient prognosis. Real-Time PCR results also showed high expression of PCDHB6 in gastric cancer. PCDHB6 expression was positively correlated with tumor-associated fibroblasts, Basophils, CD4 + memory T-cells, CD8 + T- cells, Eosinophils, Macrophages, Regulatory T-cells and Type 2 T-helper cells were positively correlated with immune infiltration. KEGG and GO enrichment analysis showed that PCDHB6 gene was mainly involved in the regulation of Herpes simplex virus 1 infection, Hippo signaling pathway and cell adhesion pathway. Conclusions Our study comprehensive summary and analysis revealed for the first time that PCDHB6 is highly expressed in gastric cancer and is an oncogene. PCDHB6 can be used as a potential prognostic biomarker for gastric cancer and provides a powerful therapeutic target for the treatment of gastric cancer.

show abstract

“…In addition, hsa-miR-4770 was upregulated in pancreatic intraductal papillary mucinous neoplasms [33]. Metastasis associated lung adenocarcinoma transcript 1 (MALAT1) is overexpressed in malignant retinoblastoma (RB), the ceRNA network was constructed between MALAT1 and cytokinesis-associated genes, and hsa-miR-4770 was found as one of the potential miRNAs involved in the association of MALAT1 and RB [34]. In addition, the downregulation of hsa-miR-4770 expression was also reported in esophageal squamous cell carcinoma, endometric cancer, and laryngeal squamous cell carcinoma [35][36][37].We uncovered that hsa-miR-4770 was signi cantly downregulated in GBC compared with normal tissues in the GSE104165 dataset.…”

Section: Discussionmentioning

confidence: 99%

Identification of hsa-miR-4770 as characteristic microRNA of gallbladder carcinoma and exploration on the ceRNA regulation mechanism via integrated bioinformatics analysis

Shao

Zhu

et al. 2023

Preprint

View full text Add to dashboard Cite

Background and Aims: Gallbladder carcinoma (GBC) is a highly malignant tumor with a poor overall prognosis. This study aimed to identify the characteristic microRNAs (miRNAs) of GBC and the competing endogenous RNA (ceRNA) regulatory mechanisms. Methods GBC-related differentially expressed miRNAs (DE-miRNAs) were authenticated by differential expression analysis and weighted gene co-expression network analysis (WGCNA). The characteristic miRNA was extracted by least absolute shrinkage and selection operator (LASSO) and Support vector machine-recursive feature elimination (SVM-RFE). Targeting genes (mRNAs), upstream circularRNAs (circRNAs), and long noncoding RNAs (lncRNAs) prediction for the characteristic miRNAs was conducted by using the Starbase database. The lncRNA(circRNA)-miRNA-mRNA network was created by Cytoscape software. Gene Ontology (GO) and KEGG enrichment analysis was implemented by clusterProfiler R package. The varElect was applied to analyse the target genes, and search for functions and interactions by GeneMANIA. The expression of characteristic miRNA in clinical samples was verified by quantitative real-time polymerase chain reaction (RT-qPCR). Results A total of 131 GBC-related DE-miRNAs were obtained. The hsa-miR-4770 was defined as characteristic miRNA for GBC. The ceRNA network containing 211 mRNAs, 1 miRNA, 2 lncRNAs, and 48 circRNAs was created. The downstream genes were mainly involved in actin filament organization, cell-substrate adhesion, cell-matrix adhesion, reactive oxygen species metabolic process, glutamine metabolic process and extracellular matrix (ECM)-receptor interaction pathway. 10 key genes in the network, namely BRCA1, CHEK2, RB1, CASP8, PTGS2, CD44, KRT19, CDK1, PVT1, and MXRA5 were found to be most correlated with disease. Multiple genes involved in cell cycle-related processes, p53 related pathway, and extrinsic apoptotic signaling pathway. RT-qPCR result demonstrated that the expression trends of hsa-miR-4770 was consistent with the public database. Conclusion We identified hsa-miR-4770 as the characteristic miRNA for GBC. The ceRNA network of hsa-miR-4770 may play key roles in GBC. This study provided a little basis for potential pathogenesis of GBC.

show abstract

Weighted genes associated with the progression of retinoblastoma: Evidence from bioinformatic analysis

Cited by 8 publications

References 26 publications

miR-495-3p depresses cell proliferation and migration by downregulating HMGB1 in colorectal cancer

miR-495-3p depresses cell proliferation and migration by downregulating HMGB1 in colorectal cancer

Bioinformatics study of PCDHB6 as a prognostic marker for gastric cancer

Identification of hsa-miR-4770 as characteristic microRNA of gallbladder carcinoma and exploration on the ceRNA regulation mechanism via integrated bioinformatics analysis

Contact Info

Product

Resources

About