Clinical correlations and prognostic value of Nudix hydroxylase 10 in patients with gastric cancer

Chen, Diqun; Zhang, Rouxin; Xie, Aosi; Yuan, Jinpeng; Zhang, Jinhai; Huang, Yongjian; Zhang, Hongxia; Zhang, Feiran

doi:10.1080/21655979.2021.1995104

Cited by 6 publications

(5 citation statements)

References 29 publications

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“…Research by Kamdar et al has shown that reduced level of NUDT10 may improve promoter methylation in prostate cancer by showing tumoral suppressive characteristics (Kamdar et al, 2019). Similar to our study, a recent study has been concluded that the expressions of NUDT10 mRNA and protein in gastric cancer samples were remarkably reduced than those in controls (Chen D. et al, 2021).…”

Section: Figuresupporting

confidence: 92%

The pattern of expression and prognostic value of key regulators for m7G RNA methylation in hepatocellular carcinoma

et al. 2022

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N7-methylguanosine (m7G) modification on internal RNA positions plays a vital role in several biological processes. Recent research shows m7G modification is associated with multiple cancers. However, in hepatocellular carcinoma (HCC), its implications remain to be determined. In this place, we need to interrogate the mRNA patterns for 29 key regulators of m7G RNA modification and assess their prognostic value in HCC. Initial, the details from The Cancer Genome Atlas (TCGA) database concerning transcribed gene data and clinical information of HCC patients were inspected systematically. Second, according to the mRNA profiles of 29 m7G RNA methylation regulators, two clusters (named 1 and 2, respectively) were identified by consensus clustering. Furthermore, robust risk signature for seven m7G RNA modification regulators was constructed. Last, we used the Gene Expression Omnibus (GEO) dataset to validate the prognostic associations of the seven-gene risk signature. We figured out that 24/29 key regulators of m7G RNA modification varied remarkably in their grades of expression between the HCC and the adjacent tumor control tissues. Cluster one compared with cluster two had a substandard prognosis and was also positively correlated with T classification (T), pathological stage, and vital status (fustat) significantly. Consensus clustering results suggested the expression pattern of m7G RNA modification regulators was correlated with the malignancy of HCC strongly. In addition, cluster one was extensively enriched in metabolic-related pathways. Seven optimal genes (METTL1, WDR4, NSUN2, EIF4E, EIF4E2, NCBP1, and NCBP2) were selected to establish the risk model for HCC. Indicating by further analyses and validation, the prognostic model has fine anticipating command and this probability signature might be a self supporting presage factor for HCC. Finally, a new prognostic nomogram based on age, gender, pathological stage, histological grade, and prospects were established to forecast the prognosis of HCC patients accurately. In essence, we detected association of HCC severity and expression levels of m7G RNA modification regulators, and developed a risk score model for predicting prognosis of HCC patients’ progression.

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Section: Figuresupporting

confidence: 92%

The pattern of expression and prognostic value of key regulators for m7G RNA methylation in hepatocellular carcinoma

et al. 2022

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“…m7G regulators are prognostic markers of a variety of cancers. METTL1 and WDR4 are highly expressed in a variety of tumors, such as liver cancer ( Chen D et al, 2021 ), intrahepatic cholangiocarcinoma ( Dai S et al, 2021 ), and lung cancer ( Ma et al, 2021 ), which is related to poor prognosis of patients. High expression of NSUN2 is associated with poor prognosis of gastric cancer ( Hu J et al, 2021 ) and esophageal squamous cell carcinoma ( Su et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

m7G regulator-mediated molecular subtypes and tumor microenvironment in kidney renal clear cell carcinoma

Chen

Nie²,

Gao³

et al. 2022

Front. Pharmacol.

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Background: RNA methylation modification plays an important role in immune regulation. m7G RNA methylation is an emerging research hotspot in the RNA methylation field. However, its role in the tumor immune microenvironment of kidney renal clear cell carcinoma (KIRC) is still unclear.Methods: We analyzed the expression profiles of 29 m7G regulators in KIRC, integrated multiple datasets to identify a novel m7G regulator-mediated molecular subtype, and developed the m7G score. We evaluated the immune tumor microenvironments in m7G clusters and analyzed the correlation of the m7G score with immune cells and drug sensitivity. We tested the predictive power of the m7G score for prognosis of patients with KIRC and verified the predictive accuracy of the m7G score by using the GSE40912 and E-MTAB-1980 datasets. The genes used to develop the m7G score were verified by qRT-PCR. Finally, we experimentally analyzed the effects of WDR4 knockdown on KIRC proliferation, migration, invasion, and drug sensitivity.Results: We identified three m7G clusters. The expression of m7G regulators was higher in cluster C than in other clusters. m7G cluster C was related to immune activation, low tumor purity, good prognosis, and low m7G score. Cluster B was related to drug metabolism, high tumor purity, poor survival, and high m7G score. Cluster A was related to purine metabolism. The m7G score can well-predict the prognosis of patients with KIRC, and its prediction accuracy based on the m7G score nomogram was very high. Patients with high m7G scores were more sensitive to rapamycin, gefitinib, sunitinib, and vinblastine than other patients. Knocking down WDR4 can inhibit the proliferation, migration, and invasion of 786-0 and Caki-1 cells and increase sensitivity to sorafenib and sunitinib.Conclusion: We proposed a novel molecular subtype related to m7G modification and revealed the immune cell infiltration characteristics of different subtypes. The developed m7G score can well-predict the prognosis of patients with KIRC, and our research provides a basis for personalized treatment of patients with KIRC.

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“…NUDT10 is a member of the nucleoside diphosphate-linked moiety X (NUDIX) hydroxylases. Research indicates that for patients with GC, NUDT10 expression is related to the disease stage, level of local invasion, and survival outcome ( 56 ). POLR2I encodes a subunit of RNA polymerase II, the polymerase responsible for synthesizing mRNA in eukaryotes and has potential as a novel biomarker for colorectal cancer metastasis ( 57 ).…”

Section: Discussionmentioning

confidence: 99%

A methylation-related signature for predicting prognosis and sensitivity to first-line therapies in gastric cancer

Cao,

Luo,

Zhang

et al. 2023

J Gastrointest Oncol

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Background Methylation modification patterns play a crucial role in human cancer progression, especially in gastrointestinal cancers. We aimed to use methylation regulators to classify patients with gastric adenocarcinoma and build a model to predict prognosis, promoting the application of precision medicine. Methods We obtained RNA sequencing data and clinical data from The Cancer Genome Atlas (TCGA) database (n=335) and Gene Expression Omnibus (GEO) database (n=865). Unsupervised consensus clustering was used to identify subtypes of gastric adenocarcinoma. We performed functional enrichment analysis, immune infiltration analysis, drug sensitivity analysis, and molecular feature analysis to determine the clinical application for different subtypes. The univariate Cox regression analysis and the LASSO regression analysis were subsequently used to identify prognosis-related methylation regulators and construct a risk model. Results Through unsupervised consensus clustering, patients were divided into two subtypes (cluster A and cluster B) with different clinical outcomes. Cluster B included patients with a better prognosis outcome and who were more likely to respond to immunotherapy. We then successfully built a predictive model and found five methylation-related genes ( CHAF1A, CPNE8, PHLDA3, SPARC , and EHF ) potentially significant to the prognosis of patients. The 1-, 3-, and 5-year areas under the curve of the risk model were 0.712, 0.696, and 0.759, respectively. The risk score was an independent prognostic factor and had the highest concordance index among common clinical indicators. Meanwhile, the tumor microenvironment, sensitivity of chemotherapeutic drugs, molecular features, and oncogenic dedifferentiation differed significantly across the risk groups and subtypes. Conclusions We classified patients with gastric adenocarcinoma based on methylation regulators, which has positive implications for first-line clinical treatment. The prognostic model could predict the prognosis of patients and help to promote the development of precision medicine.

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Clinical correlations and prognostic value of Nudix hydroxylase 10 in patients with gastric cancer

Cited by 6 publications

References 29 publications

The pattern of expression and prognostic value of key regulators for m7G RNA methylation in hepatocellular carcinoma

The pattern of expression and prognostic value of key regulators for m7G RNA methylation in hepatocellular carcinoma

m7G regulator-mediated molecular subtypes and tumor microenvironment in kidney renal clear cell carcinoma

A methylation-related signature for predicting prognosis and sensitivity to first-line therapies in gastric cancer

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