Integrated bioinformatic analysis of RNA binding proteins in hepatocellular carcinoma

Zhang, Zhen; Li, Yuan; Wan, Yanyan; Xing, Baocai

doi:10.18632/aging.202281

Cited by 18 publications

(16 citation statements)

References 69 publications

(43 reference statements)

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“…It was reported that in lung adenocarcinoma, colorectal cancer, and breast cancer, GTPBP4 showed a trend of upregulated expression [ 19 , 24 , 25 ]. In addition, we also found that liver cancer patients with upregulated expression of GTPBP4 showed a shorter overall survival time ( P =0.02), which is consistent with the results of previous studies [ 26 , 27 ]. The expression of GTPBP4 was positively correlated with the invasion of B cells and macrophages, which may be one of the reasons why the expression of GTPBP4 can affect the overall survival time of liver cancer patients.…”

Section: Discussionsupporting

confidence: 92%

Upregulation of GTPBP4 Promotes the Proliferation of Liver Cancer Cells

Chen

Zhang

2021

Journal of Oncology

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Research Background. Liver cancer is a public health issue worldwide and ranks second in cancer-related mortality rates worldwide. In China, the mortality rate of liver cancer ranks second among all cancer types. The five-year survival rate of liver cancer is only 18%, and the five-year survival rate after surgery can exceed 50%, but the recurrence rate after surgery is as high as 70%. Therefore, the research on the occurrence and progression mechanism of liver cancer is still urgent. Research Method. Explore the expression of GTPBP4 in liver cancer patients in GEPIA2, Oncomine, and UALCAN databases. The relationship between GTPBP4 gene expression and the overall survival of liver cancer patients was explored in the Kaplan–Meier plotter database. Through the STRING database, the protein interacting with GTPBP4 was found. Subsequently, the expression of GTPBP4 gene’s mRNA level and protein level in liver cancer cells was verified by fluorescence quantitative PCR and Western blotting experiments. Through the CCK-8 experiment, the effect of GTPBP4 gene’s expression on the growth of liver cancer cells was explored. Through nude mouse tumorigenicity assay, the effect of GTPBP4 expression on tumor growth in vivo was explored. Results. The GTPBP4 has upregulated expression in liver cancer patients ( P < 0.01 ), but there was no difference in its expression in patients with different clinicopathological stages. The expression of GTPBP4 increased with the increase of cancer metastasis in lymph nodes ( P < 0.01 ). Liver cancer patients with upregulated expression of GTPBP4 showed a shorter overall survival rate ( P = 0.02 ). GTPBP4 is closely related to genes such as NIFK, WDR12, and RPF2, and these genes are involved in life processes such as GTP binding and rRNA processing. The upregulated expression of GTPBP4 promotes the proliferation of liver cancer cells and promotes the growth of tumors in mice, while the downregulated expression of GTPBP4 inhibits the proliferation of liver cancer cells and inhibits the growth of tumors in mice. Conclusion. The expression of GTPBP4 is upregulated in liver cancer patients and affects the overall survival rate of patients. The upregulated expression of GTPBP4 promotes the proliferation of liver cancer cells and the growth of tumors.

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Section: Discussionsupporting

confidence: 92%

Upregulation of GTPBP4 Promotes the Proliferation of Liver Cancer Cells

Chen

Zhang

2021

Journal of Oncology

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Section: Rna-binding Proteinsmentioning

confidence: 93%

“…Aberrant expression of RBPs has been shown across many malignant tumors, including HCC [98,99]. A high score based on the expression of these RBPs was associated with poor overall survival of HCC [99]. Another study showed that aberrant expression of four key RBPs, including mitochondrial ribosomal protein L54 (MRPL54), enhancer of zeste homolog 2 (EZH2), PPARγ coactivator 1 alpha (PPARGC1A), and eukaryotic translation initiation factor 2-alpha kinase 4 (EIF2AK4), can be applied to HCC prognosis [100].…”

Section: Rna-binding Proteinsmentioning

confidence: 99%

The Emerging Factors and Treatment Options for NAFLD-Related Hepatocellular Carcinoma

Zhang

Yang

2021

Cancers

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Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer, followed by cholangiocarcinoma (CCA). HCC is the third most common cause of cancer death worldwide, and its incidence is rising, associated with an increased prevalence of obesity and nonalcoholic fatty liver disease (NAFLD). However, current treatment options are limited. Genetic factors and epigenetic factors, influenced by age and environment, significantly impact the initiation and progression of NAFLD-related HCC. In addition, both transcriptional factors and post-transcriptional modification are critically important for the development of HCC in the fatty liver under inflammatory and fibrotic conditions. The early diagnosis of liver cancer predicts curative treatment and longer survival. However, clinical HCC cases are commonly found in a very late stage due to the asymptomatic nature of the early stage of NAFLD-related HCC. The development of diagnostic methods and novel biomarkers, as well as the combined evaluation algorithm and artificial intelligence, support the early and precise diagnosis of NAFLD-related HCC, and timely monitoring during its progression. Treatment options for HCC and NAFLD-related HCC include immunotherapy, CAR T cell therapy, peptide treatment, bariatric surgery, anti-fibrotic treatment, and so on. Overall, the incidence of NAFLD-related HCC is increasing, and a better understanding of the underlying mechanism implicated in the progression of NAFLD-related HCC is essential for improving treatment and prognosis.

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“…One study integrated multi-omics analysis, such as RNA-seq, Ribosome profiling and quantitative mass spectrometry, uncovered that an RNA element derived from HBV enhancer I forms a stem-loop which suppresses HBV translation ( 150 ). Furthermore, 11 RBPs (RAN, BRIX1, SMG5, DYNC1H1, PRKDC, GTPBP4, and so on) are associated with the overall survival of HCC patients by integrating RNA sequencing and proteomic data ( 13 ). These RBPs bind to various RNAs, such as mRNAs, rRNAs, ncRNAs, play a critical role in post-transcriptional gene regulation (PTGR) and are associated with RNA splicing, transport, maturation, degradation, stability, and translation ( 151 ).…”

Section: Proteomics Characteristicsmentioning

confidence: 99%

“…"Omics" technologies are used to mainly detect all protein, transcripts, and metabolites for mining for available data in the biological sample. These high-throughput technologies play critical roles in describing gene and/or protein expression profiles, and their effects on HBV-associated HCC (12)(13)(14). Although many biomarkers for diagnosis and prognosis have been identified through omics analysis of HBV infection, the previous studies focus on a single aspect of the natural history of CHB.…”

Section: Introductionmentioning

confidence: 99%

Advances in Multi-Omics Applications in HBV-Associated Hepatocellular Carcinoma

Cui

et al. 2021

Front. Med.

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Hepatitis B virus (HBV) specifically infects liver cells, leading to progressive liver cirrhosis and significantly increasing the risk of hepatocellular carcinoma (HCC). The maturity of sequencing technology, improvement in bioinformatics data analysis and progress of omics technologies had improved research efficiency. The occurrence and progression of HCC are affected by multisystem and multilevel pathological changes. With the application of single-omics technologies, including genomics, transcriptomics, metabolomics and proteomics in tissue and body fluid samples, and even the novel development of multi-omics analysis on a single-cell platform, HBV-associated HCC changes can be better analyzed. The review summarizes the application of single omics and combined analysis of multi-omics data in HBV-associated HCC and proposes the importance of multi-omics analysis in the type of HCC, which provide the possibility for the precise diagnosis and therapy of HBV-associated HCC.

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Integrated bioinformatic analysis of RNA binding proteins in hepatocellular carcinoma

Cited by 18 publications

References 69 publications

Upregulation of GTPBP4 Promotes the Proliferation of Liver Cancer Cells

Upregulation of GTPBP4 Promotes the Proliferation of Liver Cancer Cells

The Emerging Factors and Treatment Options for NAFLD-Related Hepatocellular Carcinoma

Advances in Multi-Omics Applications in HBV-Associated Hepatocellular Carcinoma

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