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Article ; Online: A novel zinc metabolism-related gene signature to predict prognosis and immunotherapy response in lung adenocarcinoma.

Chang, Wuguang / Li, Hongmu / Ou, Wei / Wang, Si-Yu

2023 Volume 14, Page(s) 1147528

Abstract: Background: Zinc is a key mineral element in regulating cell growth, development, and immune system. We constructed the zinc metabolism-related gene signature to predict prognosis and immunotherapy response for lung adenocarcinoma (LUAD).: Methods: ... ...

Abstract	Background: Zinc is a key mineral element in regulating cell growth, development, and immune system. We constructed the zinc metabolism-related gene signature to predict prognosis and immunotherapy response for lung adenocarcinoma (LUAD). Methods: Zinc metabolism-associated gene sets were obtained from Molecular Signature Database. Then, the zinc metabolism-related gene signature (ZMRGS) was constructed and validated. After combining with clinical characteristics, the nomogram for practical application was constructed. The differences in biological pathways, immune molecules, and tumor microenvironment (TME) between the different groups were analyzed. Tumor Immune Dysfunction and Exclusion algorithm (TIDE) and two immunotherapy datasets were used to evaluate the immunotherapy response. Results: The signature was constructed according to six key zinc metabolism-related genes, which can well predict the prognosis of LUAD patients. The nomogram also showed excellent prediction performance. Functional analysis showed that the low-risk group was in the status of immune activation. More importantly, the lower risk score of LUAD patients showed a higher response rate to immunotherapy. Conclusion: The state of zinc metabolism is closely connected to prognosis, tumor microenvironment, and response to immunotherapy. The zinc metabolism-related signature can well evaluate the prognosis and immunotherapy response for LUAD patients.
MeSH term(s)	Humans ; Zinc ; Immunotherapy ; Prognosis ; Adenocarcinoma of Lung/genetics ; Adenocarcinoma of Lung/therapy ; Lung Neoplasms/genetics ; Lung Neoplasms/therapy ; Tumor Microenvironment/genetics
Chemical Substances	Zinc (J41CSQ7QDS)
Language	English
Publishing date	2023-03-24
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2606827-8
ISSN	1664-3224 ; 1664-3224
ISSN (online)	1664-3224
ISSN	1664-3224
DOI	10.3389/fimmu.2023.1147528
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Construction and validation of a T cell proliferation regulator-related signature for predicting prognosis and immunotherapy response in lung adenocarcinoma.

Chang, Wuguang / Li, Hongmu / Cheng, Yixin / He, Huanhuan / Ou, Wei / Wang, Si-Yu

Frontiers in immunology

2023 Volume 14, Page(s) 1171145

Abstract: Background: As the main executor of immunotherapy, T cells significantly affect the efficacy of immunotherapy. However, the contribution of the T cell proliferation regulator to the prognosis of lung adenocarcinoma (LUAD) and immunotherapy is still ... ...

Abstract	Background: As the main executor of immunotherapy, T cells significantly affect the efficacy of immunotherapy. However, the contribution of the T cell proliferation regulator to the prognosis of lung adenocarcinoma (LUAD) and immunotherapy is still unclear. Methods: Based on T cell proliferation regulators, LUAD samples from The Cancer Genome Atlas (TCGA) were divided into two different clusters by consensus clustering. Subsequently, the T cell proliferation regulator (TPR) signature was constructed according to the prognostic T cell proliferation regulators. Combined with clinical information, a nomogram for clinical practice was constructed. The predictive ability of the signature was verified by the additional Gene Expression Omnibus (GEO) dataset. We also analyzed the differences of tumor microenvironment (TME) in different subgroups and predicted the response to immunotherapy according to the TIDE algorithm. Finally, we further explored the role of Results: According to the consensus clustering, there were differences in survival and tumor microenvironment between two different molecular subtypes. T cell proliferation regulator-related signature could accurately predict the prognosis of LUAD. The low-risk group had a higher level of immune infiltration and more abundant immune-related pathways, and its response to immunotherapy was significantly better than the high-risk group (Chi-square test, p<0.0001). The knockdown of Conclusion: T cell proliferation regulators were closely related to the prognosis and tumor microenvironment of LUAD patients. And the signature could well predict the prognosis of LUAD patients and their response to immunotherapy.
MeSH term(s)	Humans ; Prognosis ; Adenocarcinoma of Lung/genetics ; Adenocarcinoma of Lung/therapy ; Immunotherapy ; Cell Proliferation ; Lung Neoplasms/genetics ; Lung Neoplasms/therapy ; Tumor Microenvironment
Language	English
Publishing date	2023-04-04
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2606827-8
ISSN	1664-3224 ; 1664-3224
ISSN (online)	1664-3224
ISSN	1664-3224
DOI	10.3389/fimmu.2023.1171145
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: TP53 Mutations in Esophageal Squamous Cell Carcinoma.

Zhong, Leqi / Li, Hongmu / Chang, Wuguang / Ao, Yong / Wen, Zhesheng / Chen, Youfang

Frontiers in bioscience (Landmark edition)

2023 Volume 28, Issue 9, Page(s) 219

Abstract: The occurrence and development of esophageal cancer involve multiple genetic abnormalities that contribute to the malignant transformation of esophageal epithelial cells, followed by invasion and metastasis, leading to a poor outcome. Esophageal squamous ...

Abstract	The occurrence and development of esophageal cancer involve multiple genetic abnormalities that contribute to the malignant transformation of esophageal epithelial cells, followed by invasion and metastasis, leading to a poor outcome. Esophageal squamous cell carcinoma (ESCC) is the predominant histological subtype of esophageal malignancy in East Asia, with approximately half of newly diagnosed ESCC cases occurring in China. The TP53 tumor suppressor gene mutation is one of the most common mutations in ESCC. TP53 mutations are observed even in the early phases of esophageal carcinogenesis. Normal functions of the p53 network are lost in cells of ESCC patients who harbor the mutant
MeSH term(s)	Humans ; Esophageal Squamous Cell Carcinoma/genetics ; Esophageal Squamous Cell Carcinoma/pathology ; Tumor Suppressor Protein p53/genetics ; Esophageal Neoplasms/genetics ; Esophageal Neoplasms/pathology ; Mutation ; China
Chemical Substances	Tumor Suppressor Protein p53 ; TP53 protein, human
Language	English
Publishing date	2023-10-05
Publishing country	Singapore
Document type	Journal Article ; Review ; Research Support, Non-U.S. Gov't
ZDB-ID	2704569-9
ISSN	2768-6698 ; 2768-6698
ISSN (online)	2768-6698
ISSN	2768-6698
DOI	10.31083/j.fbl2809219
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article: Development and validation of a disulfidptosis and disulfide metabolism-related risk index for predicting prognosis in lung adenocarcinoma.

Zhong, Leqi / Chang, Wuguang / Luo, Bin / Gao, Wuyou / He, Huanhuan / Fang, Mouxiang / Li, Hongmu / Wen, Zhesheng / Chen, Youfang

Cancer cell international

2024 Volume 24, Issue 1, Page(s) 2

Abstract: Background: Disulfidptosis is a recently proposed novel cell death mode in which cells with high SLC7A11 expression induce disulfide stress and cell death in response to glucose deficiency. The purpose of the research was to explore the function of ... ...

Abstract	Background: Disulfidptosis is a recently proposed novel cell death mode in which cells with high SLC7A11 expression induce disulfide stress and cell death in response to glucose deficiency. The purpose of the research was to explore the function of disufidptosis and disulfide metabolism in the progression of lung adenocarcinoma (LUAD). Methods: The RNA-seq data from TCGA were divided into high/low expression group on the base of the median expression of SLC7A11, and the characteristic of differentially expressed disulfide metabolism-related genes. Least absolute shrinkage and selection operator (LASSO) algorithm was conducted the disulfidptosis and disulfide metabolism risk index. The tumor mutation burden (TMB), mechanism, pathways, tumor microenvironment (TME), and immunotherapy response were assessed between different risk groups. The role of TXNRD1 in LUAD was investigated by cytological experiments. Results: We established the risk index containing 5 genes. There are significant differences between different risk groups in terms of prognosis, TMB and tumor microenvironment. Additionally, the low-risk group demonstrated a higher rate of response immunotherapy in the prediction of immunotherapy response. Experimental validation suggested that the knockdown of TXNRD1 suppressed cell proliferation, migration, and invasion of LUAD. Conclusion: Our research highlights the enormous potential of disulfidptosis and disulfide metabolism risk index in predicting the prognosis of LUAD. And TXNRD1 has great clinical translational ability.
Language	English
Publishing date	2024-01-02
Publishing country	England
Document type	Journal Article
ZDB-ID	2091573-1
ISSN	1475-2867
ISSN	1475-2867
DOI	10.1186/s12935-023-03204-1
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Article ; Online: Identification and Validation of UPF1 as a Novel Prognostic Biomarker in Renal Clear Cell Carcinoma.

Wu, Chun / Li, Hongmu / Chang, Wuguang / Zhong, Leqi / Zhang, Lin / Wen, Zhesheng / Mai, Shijuan

Genes

2022 Volume 13, Issue 11

Abstract: Background: ...

Abstract	Background:
MeSH term(s)	Humans ; Carcinoma, Renal Cell/genetics ; Carcinoma, Renal Cell/pathology ; Prognosis ; RNA Helicases/genetics ; RNA Helicases/metabolism ; Kidney Neoplasms/genetics ; Kidney Neoplasms/pathology ; RNA, Messenger/genetics ; RNA, Messenger/metabolism ; Tumor Microenvironment/genetics ; Trans-Activators/genetics ; Trans-Activators/metabolism
Chemical Substances	RNA Helicases (EC 3.6.4.13) ; RNA, Messenger ; UPF1 protein, human (EC 3.6.4.13) ; Trans-Activators
Language	English
Publishing date	2022-11-20
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2527218-4
ISSN	2073-4425 ; 2073-4425
ISSN (online)	2073-4425
ISSN	2073-4425
DOI	10.3390/genes13112166
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Development of a copper metabolism-related gene signature in lung adenocarcinoma.

Chang, Wuguang / Li, Hongmu / Zhong, Leqi / Zhu, Tengfei / Chang, Zenghao / Ou, Wei / Wang, Siyu

Frontiers in immunology

2022 Volume 13, Page(s) 1040668

Abstract: Purpose: The dysregulation of copper metabolism is closely related to the occurrence and progression of cancer. This study aims to investigate the prognostic value of copper metabolism-related genes (CMRGs) in lung adenocarcinoma (LUAD) and its ... ...

Abstract	Purpose: The dysregulation of copper metabolism is closely related to the occurrence and progression of cancer. This study aims to investigate the prognostic value of copper metabolism-related genes (CMRGs) in lung adenocarcinoma (LUAD) and its characterization in the tumor microenvironment (TME). Methods: The differentially expressed CMRGs were identified in The Cancer Genome Atlas (TCGA) of LUAD. The least absolute shrinkage and selection operator regression (LASSO) and multivariate Cox regression analysis were used to establish the copper metabolism-related gene signature (CMRGs), which was also validated in Gene Expression Omnibus (GEO) database (GSE72094). The expression of key genes was verified by quantitative real-time PCR (qRT-PCR). Then, the CMRGS was used to develop a nomogram to predict the 1-year, 3-year, and 5-year overall survival (OS). In addition, differences in tumor mutation burden (TMB), biological characteristics and immune cell infiltration between high-risk and low-risk groups were systematically analyzed. Immunophenoscore (IPS) and an anti-PD-L1 immunotherapy cohort (IMvigor210) were used to verify whether CMRGS can predict the response to immunotherapy in LUAD. Results: 34 differentially expressed CMRGs were identified in the TCGA dataset, 11 of which were associated with OS. The CMRGS composed of 3 key genes (LOXL2, SLC31A2 and SOD3) had showed good clinical value and stratification ability in the prognostic assessment of LUAD patients. The results of qRT-PCR confirmed the expression of key CMRGs in LUAD and normal tissues. Then, all LUAD patients were divided into low-risk and high-risk groups based on median risk score. Those in the low-risk group had a significantly longer OS than those in the high-risk group (P<0.0001). The area under curve (AUC) values of the nomogram at 1, 3, and 5 years were 0.734, 0.735, and 0.720, respectively. Calibration curves comparing predicted and actual OS were close to ideal model, indicating a good consistency between prediction and actual observation. Functional enrichment analysis showed that the low-risk group was enriched in a large number of immune pathways. The results of immune infiltration analysis also confirmed that there were a variety of immune cell infiltration in the low-risk group. In addition, multiple immune checkpoints were highly expressed in the low-risk group and may benefit better from immunotherapy. Conclusion: CMRGS is a promising biomarker to assess the prognosis of LUAD patients and may be serve as a guidance on immunotherapy.
Language	English
Publishing date	2022-11-29
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2606827-8
ISSN	1664-3224 ; 1664-3224
ISSN (online)	1664-3224
ISSN	1664-3224
DOI	10.3389/fimmu.2022.1040668
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Overexpression of PSAT1 is Correlated with Poor Prognosis and Immune Infiltration in Non-Small Cell Lung Cancer.

Li, Hongmu / Wu, Chun / Chang, Wuguang / Zhong, Leqi / Gao, Wuyou / Zeng, Mingyue / Wen, Zhesheng / Mai, Shijuan / Chen, Youfang

Frontiers in bioscience (Landmark edition)

2023 Volume 28, Issue 10, Page(s) 243

Abstract: Purpose: Current evidence suggests that phosphoserine aminotransferase 1 (: Methods: The expression profile of : Results: Analysis of transcriptional expression profiles using TCGA data revealed overexpression of : Conclusions: ... ...

Abstract	Purpose: Current evidence suggests that phosphoserine aminotransferase 1 ( Methods: The expression profile of Results: Analysis of transcriptional expression profiles using TCGA data revealed overexpression of Conclusions: PSAT1
MeSH term(s)	Humans ; Carcinoma, Non-Small-Cell Lung/genetics ; Cell Line ; Cell Proliferation/genetics ; Immunotherapy ; Lung Neoplasms/genetics ; Tumor Microenvironment/genetics
Chemical Substances	PSAT1 protein, human (EC 2.6.1.52)
Language	English
Publishing date	2023-11-02
Publishing country	Singapore
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2704569-9
ISSN	2768-6698 ; 2768-6698
ISSN (online)	2768-6698
ISSN	2768-6698
DOI	10.31083/j.fbl2810243
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Identification of an Amino Acid Metabolism-Related Gene Signature for Predicting Prognosis in Lung Adenocarcinoma

Chang, Wuguang / Li, Hongmu / Wu, Chun / Zhong, Leqi / Zhu, Tengfei / Chang, Zenghao / Ou, Wei / Wang, Siyu

Genes (Basel). 2022 Dec. 06, v. 13, no. 12

2022

Abstract: Dysregulation of amino acid metabolism (AAM) is an important factor in cancer progression. This study intended to study the prognostic value of AAM-related genes in lung adenocarcinoma (LUAD). Methods: The mRNA expression profiles of LUAD datasets from ... ...

Abstract	Dysregulation of amino acid metabolism (AAM) is an important factor in cancer progression. This study intended to study the prognostic value of AAM-related genes in lung adenocarcinoma (LUAD). Methods: The mRNA expression profiles of LUAD datasets from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO) were applied as the training and validation sets. After identifying the differentially expressed AAM-related genes, an AAM-related gene signature (AAMRGS) was constructed and validated. Additionally, we systematically analyzed the differences in immune cell infiltration, biological pathways, immunotherapy response, and drug sensitivity between the two AAMRGS subgroups. Results: The prognosis-related signature was constructed on the grounds of key AAM-related genes. LUAD patients were divided into AAMRGS-high and -low groups. Patients in the two subgroups differed in prognosis, tumor microenvironment (TME), biological pathways, and sensitivity to chemotherapy and immunotherapy. The area under the receiver operating characteristics (ROC) and calibration curves showed good predictive ability for the nomogram. Analysis of immune cell infiltration revealed that the TME of the AAMRGS-low group was in a state of immune activation. Conclusion: We constructed an AAMRGS that could effectively predict prognosis and guide treatment strategies for patients with LUAD.
Keywords	adenocarcinoma ; amino acid metabolism ; amino acids ; data collection ; drug therapy ; drugs ; gene expression ; genes ; immunotherapy ; lungs ; neoplasm progression ; nomogram ; prognosis
Language	English
Dates of publication	2022-1206
Publishing place	Multidisciplinary Digital Publishing Institute
Document type	Article ; Online
ZDB-ID	2527218-4
ISSN	2073-4425
ISSN	2073-4425
DOI	10.3390/genes13122295
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Identification of an Amino Acid Metabolism-Related Gene Signature for Predicting Prognosis in Lung Adenocarcinoma.

Chang, Wuguang / Li, Hongmu / Wu, Chun / Zhong, Leqi / Zhu, Tengfei / Chang, Zenghao / Ou, Wei / Wang, Siyu

Genes

2022 Volume 13, Issue 12

Abstract	Dysregulation of amino acid metabolism (AAM) is an important factor in cancer progression. This study intended to study the prognostic value of AAM-related genes in lung adenocarcinoma (LUAD).
Language	English
Publishing date	2022-12-06
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2527218-4
ISSN	2073-4425 ; 2073-4425
ISSN (online)	2073-4425
ISSN	2073-4425
DOI	10.3390/genes13122295
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: PD1

Wu, Chun / Duan, Lianhui / Li, Hongmu / Liu, Xuefei / Cai, Taonong / Yang, Yang / Yin, Yuting / Chang, Wuguang / Zhong, Leqi / Zhang, Lin / Cheng, Yixin / Qin, Haide / Wen, Zhesheng / Wang, Huiyun / Mai, Shijuan

Clinical and translational medicine

2023 Volume 13, Issue 6, Page(s) e1303

Abstract: Background: Bladder cancer (BLCA) is one of the most diagnosed cancers in humans worldwide. Recently, immunotherapy has become a main treatment option for BC. However, most BLCA patients do not respond to immune checkpoint inhibitors or relapse after ... ...

Abstract	Background: Bladder cancer (BLCA) is one of the most diagnosed cancers in humans worldwide. Recently, immunotherapy has become a main treatment option for BC. However, most BLCA patients do not respond to immune checkpoint inhibitors or relapse after immunotherapy. Therefore, it is very important to identify novel biomarkers for the prediction of immunotherapy response in B patients. Methods: Pancancer single-cell RNA sequencing (scRNA-seq) data were used to identify the clusters of CD4 Results: This study identified two novel exhausted CD4 Conclusions: PD1
MeSH term(s)	Humans ; Epithelial-Mesenchymal Transition ; T-Lymphocytes ; Neoplasm Recurrence, Local ; Urinary Bladder Neoplasms/therapy ; CD4-Positive T-Lymphocytes ; Tumor Microenvironment ; Methyltransferases
Chemical Substances	METTL3 protein, human (EC 2.1.1.62) ; Methyltransferases (EC 2.1.1.-)
Language	English
Publishing date	2023-06-13
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2697013-2
ISSN	2001-1326 ; 2001-1326
ISSN (online)	2001-1326
ISSN	2001-1326
DOI	10.1002/ctm2.1303
Database	MEDical Literature Analysis and Retrieval System OnLINE

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