Construction and Assessment of a Prognostic Risk Model for Cervical Cancer Based on Lactate Metabolism-Related lncRNAs DOI Creative Commons
Ya Gao, Hongyang Liu, Junhu Wan

et al.

International Journal of General Medicine, Journal Year: 2023, Volume and Issue: Volume 16, P. 2943 - 2960

Published: July 1, 2023

Purpose: Cervical cancer (CC) has the fourth highest incidence and mortality rate among female cancers. Lactate is a key regulator promoting tumor progression. Long non-coding RNAs (lncRNAs) are closely associated with cervical (CC). The study was aimed to develop prognostic risk model for based on lactate metabolism-associated lncRNAs determine their clinical value. Patients Methods: In this study, CESC transcriptome data were obtained from TCGA database. 262 genes extracted MsigDB (Molecular Characterization Database). Then, correlation analysis used identify LRLs. Univariate Cox regression performed afterwards, followed by least absolute shrinkage selection operator (LASSO) multiple analysis. 10 finally identified construct score model. They divided into two groups of high low according median scores. predictive performance models assessed Kaplan-Meier (K-M) analysis, subject work characteristics (ROC) univariate multivariate analyses. To assess utility model, we functional enrichment immune microenvironment mutation column line graph generation. Results: We constructed consisting LRLs at CC. observed that high-risk populations strongly poor survival outcomes. Risk an independent factor CC prognosis mutational load. Conclusion: developed metabolism it predict CC, which could guide facilitate progress new treatment strategies disease monitoring in patients. Keywords: cancer, metabolism, long RNA, bioinformatics,

Language: Английский

Comprehensive Analysis of Characteristics of Cuproptosis-Related LncRNAs Associated with Prognosis of Lung Adenocarcinoma and Tumor Immune Microenvironment DOI Creative Commons
Feihong Chen, Xin Wen, Jiani Wu

et al.

Pharmaceuticals, Journal Year: 2024, Volume and Issue: 17(9), P. 1244 - 1244

Published: Sept. 21, 2024

As a novel discovered mechanism of cell death, cuproptosis is copper-dependent and induces protein toxicity related to advanced tumors, disease prognosis, human innate adaptive immune response. However, it has not yet been fully established how the prognosis lung adenocarcinoma (LUAD) microenvironment cuproptosis-related lncRNAs using several bioinformatic techniques. In study, 19 genes were collected. Subsequently, 783 co-expression obtained. Moreover, Cox model revealed constructed four lncRNA (

Language: Английский

Citations

1
Analysis of Time Series Gene Expression and DNA Methylation Reveals the Molecular Features of Myocardial Infarction Progression DOI Creative Commons
Yuru Han,

Baoyu Duan,

Jing Wu

et al.

Frontiers in Cardiovascular Medicine, Journal Year: 2022, Volume and Issue: 9

Published: June 24, 2022

Myocardial infarction (MI) is one of the deadliest diseases in world, and changes at molecular level after MI DNA methylation features are not clear. Understanding characteristics early stages significance for treatment disease. In this study, RNA-seq MeDIP-seq were performed on heart tissue from mouse models multiple time points (0 h, 10 min, 1, 6, 24, 72 h) to explore genetic epigenetic that influence progression. Analysis based a single point time, number differentially expressed genes (DEGs) methylated regions (DMRs) increased with myocardial infarction, using 0 h as control group. Moreover, within min onset, cells mainly immune response, duration increases, apoptosis begins occur. series data, expression 1012 was specifically downregulated, these associated energy metabolism. The 5806 upregulated, regulation, inflammation apoptosis. Fourteen transcription factors identified involved inflammation, which may be potential drug targets. combined methodology, focused promoter region. GO revealed downregulated hypermethylation enriched biological processes such cardiac muscle contraction. addition, upregulated hypomethylation processes, cell-cell adhesion, regulation apoptotic signaling pathway angiogenesis. Among genes, Tnni3 gene also present model. Hypermethylation an important cause exacerbation MI.

Language: Английский

Citations

7
Immunological and prognostic analysis of PSENEN in low-grade gliomas: An immune infiltration-related prognostic biomarker DOI Creative Commons
Kai‐Jie Chen,

Beibei Liang,

Wenhao Ma

et al.

Frontiers in Molecular Neuroscience, Journal Year: 2022, Volume and Issue: 15

Published: July 28, 2022

Metformin is widely used in the treatment of type 2 diabetes (T2D) and plays a role antitumor antiobesity processes. A recent study identified its direct molecular target, PEN2 (PSENEN). PSENEN minimal subunit multiprotein complex γ-secretase, which promotes differentiation oligodendrocyte progenitors into astrocytes central nervous system. This was mainly based on gene expression data clinical from TCGA CGGA databases. Analysis differential between tissues 31 cancers paracancerous revealed that it had high levels most except cancers. Using univariate Cox regression analysis Kaplan-Meier survival analysis, level shown to be risk factor low-grade gliomas (LGG). Gene ontology (GO) kyoto encyclopedia genes genomes (KEGG) analyses indicated involved immune-related signaling pathways LGG. significantly associated with TMB, MSI, tumor stemness index, immunomodulatory Finally, immune infiltration presence various infiltrating cells, among strongly M2 macrophages played synergistic pro-cancer role. In conclusion, may partially influence prognosis by modulating patients LGG, candidate prognostic biomarker for determining

Language: Английский

Citations

7
The Role of Mitochondrial Autophagy in Osteoarthritis DOI Creative Commons

Genchun Wang,

Xiong Zhang, Jingting Xu

et al.

iScience, Journal Year: 2024, Volume and Issue: 27(9), P. 110741 - 110741

Published: Aug. 15, 2024

Osteoarthritis (OA) is a progressive degenerative joint disease, and the underlying molecular mechanisms of OA remain poorly understood. This study aimed to elucidate relationship between mitochondrial autophagy by identifying key regulatory genes their biological functions. Utilizing bioinformatics analyses RNA expression profiles from GSE55235 dataset, we identified 2,136 differentially expressed genes, leading discovery hub associated with OA. Gene set enrichment analysis (GSEA) revealed involvement in critical pathways, highlighting potential roles pathogenesis. Furthermore, our explored immunological landscape OA, distinct immune cell infiltration patterns that contribute disease's inflammatory profile. We also evaluated therapeutic drugs targeting these suggesting approaches for treatment. Collectively, this advances knowledge proposes promising biomarkers targets.

Language: Английский

Citations

1
Integrative Bioinformatics Analysis Reveals That miR-524-5p/MEF2C Regulates Bone Metastasis in Prostate Cancer and Breast Cancer DOI Creative Commons
Qinghua Tian, Yingying Lu,

Bi-Cong Yan

et al.

Computational and Mathematical Methods in Medicine, Journal Year: 2022, Volume and Issue: 2022, P. 1 - 13

Published: Sept. 10, 2022

Bone metastases are highly prevalent in patients with advanced prostate cancer and breast have a serious impact on the survival time quality of life these patients. It has been reported that microRNAs (miRNAs) expressed abnormally different types metastases. However, it remains unknown whether underlying miRNAs associated bone metastasis. Differentially (DE-miRNAs) their potential targets metastatic process were identified by bioinformatics analysis. Additionally, qPCR confirmed miR-524-5p expression was downregulated cells. The overexpression restrained cell proliferation, invasion, metastasis Meanwhile, could target inhibit MEF2C, which verified luciferase assay. In conclusion, our data strongly suggest downregulation appears to be precocious event cancer, miR-524-5p/MEF2C axis plays novel role from cancers.

Language: Английский

Citations

6
A prognostic and therapeutic hallmark developed by the integrated profile of basement membrane and immune infiltrative landscape in lung adenocarcinoma DOI Creative Commons
Kai‐Jie Chen, Shuang Liu, Changlian Lu

et al.

Frontiers in Immunology, Journal Year: 2022, Volume and Issue: 13

Published: Nov. 30, 2022

Basement membranes (BMs) are specialised extracellular matrices that maintain cellular integrity and resist the breaching of carcinoma cells for metastases while regulating tumour immunity. The immune microenvironment (TME) is essential growth response to benefits from immunotherapy. In this study, BM score TME were constructed based on expression signatures BM-related genes presence in lung adenocarcinoma (LUAD), respectively. Subsequently, BM-TME classifier was developed with combination accurate prognostic prediction. Further, Kaplan-Meier survival estimation, univariate Cox regression analysis receiver operating characteristic curves used cross-validate elucidate prediction value several cohorts. Findings functional annotation suggested potential molecular regulatory mechanisms closely related cell cycle, mitosis DNA replication pathways. Additionally, guiding treatment strategy LUAD determined. Future clinical disease management may benefit findings our research.

Language: Английский

Citations

6
Metabolism-related long non-coding RNA in the stomach cancer associated with 11 AMMLs predictive nomograms for OS in STAD DOI Creative Commons

Wenjian Jin,

Kongbo Ou,

Yuanyuan Li

et al.

Frontiers in Genetics, Journal Year: 2023, Volume and Issue: 14

Published: March 13, 2023

Background: The metabolic processes involving amino acids are intimately linked to the onset and progression of cancer. Long non-coding RNAs (LncRNAs) perform an indispensable function in modulation as well advancement tumors. Non-etheless, research into role that acid metabolism-related LncRNAs (AMMLs) might play predicting prognosis stomach adenocarcinoma (STAD) has not been done. Therefore, This study sought design a model for AMMLs predict STAD-related elucidate their immune properties molecular mechanisms. Methods: STAD RNA-seq data TCGA-STAD dataset were randomized training validation groups 1:1 ratio, models constructed validated respectively. In signature database, screened genes involved metabolism. obtained by Pearson's correlation analysis, predictive risk characteristics established using least absolute shrinkage selection operator (LASSO) regression, univariate Cox multivariate analysis. Subsequently, profiles high- low-risk patients benefit drug examined. Results: Eleven (LINC01697, LINC00460, LINC00592, MIR548XHG, LINC02728, RBAKDN, LINCOG, LINC00449, LINC01819, UBE2R2-AS1) used develop prognostic model. Moreover, high-risk individuals had worse overall survival (OS) than comprehensive groups. A score was associated with cancer metastasis angiogenic pathways high infiltration tumor-associated fibroblasts, Treg cells, M2 macrophages; suppressed responses; more aggressive phenotype. Conclusion: identified signal 11 nomograms OS STAD. These findings will help us personalize treatment gastric patients.

Language: Английский

Citations

3
Identification of mitochondrial-related genes as potential biomarkers for the subtyping and prediction of Alzheimer’s disease DOI Creative Commons
Wenhao Ma,

Yuelin Su,

Peng Zhang

et al.

Frontiers in Molecular Neuroscience, Journal Year: 2023, Volume and Issue: 16

Published: July 4, 2023

Alzheimer's disease (AD) is a progressive and debilitating neurodegenerative disorder prevalent among older adults. Although AD symptoms can be managed through certain treatments, advancing the understanding of underlying mechanisms developing effective therapies critical. In this study, we systematically analyzed transcriptome data from temporal lobes healthy individuals patients with to investigate relationship between mitochondrial autophagy. Machine learning algorithms were used identify six genes-FUNDC1, MAP1LC3A, CSNK2A1, VDAC1, CSNK2B, ATG5-for construction an prediction model. Furthermore, was categorized into three subtypes consensus clustering analysis. The identified genes are closely linked onset progression serve as reliable biomarkers. differences in gene expression, clinical features, immune infiltration, pathway enrichment examined subtypes. Potential drugs for treatment each subtype also identified. findings observed present study help deepen enable development precision medicine personalized approaches.

Language: Английский

Citations

3
The Long Noncoding RNA MEG3 Retains Epithelial-Mesenchymal Transition by Sponging miR-146b-5p to Regulate SLFN5 Expression in Breast Cancer Cells DOI Creative Commons
Xuefeng Gu,

Jingyi Li,

Xiaojia Zuo

et al.

Journal of Immunology Research, Journal Year: 2022, Volume and Issue: 2022, P. 1 - 17

Published: Aug. 18, 2022

More and more studies have shown that long noncoding RNAs (lncRNAs) play essential roles in malignant tumors. The lncRNA MEG3 serves as a crucial molecule breast cancer development, but the specific molecular mechanism needs to be further explored. We previously reported Schlafen family member 5 (SLFN5) inhibits development by regulating epithelial-mesenchymal transition (EMT), invasion, proliferation/apoptosis. Herein, we demonstrated was downregulated pan-cancers correlated with SLFN5 expression positively bioinformatics analysis of TCGA UCSC Xena data. Intervention affected cells. repressed EMT migration/invasion, similar our functions cancer. Through starBase LncBase data, 12 miRNAs were found regulate both MEG3, which miR-146b-5p confirmed regulated using siRNA overexpression method. MiR-146b-5p could bind 3 ′ UTR inhibit their competing endogenous RNA mechanism, assayed luciferase reporter pull down methods. Therefore, conclude modulates sponging development.

Language: Английский

Citations

5
Immune infiltration and diagnostic value of immune‐related genes in periodontitis using bioinformatics analysis DOI

Donglin Lai,

Wenhao Ma, Jie Wang

et al.

Journal of Periodontal Research, Journal Year: 2023, Volume and Issue: 58(2), P. 369 - 380

Published: Jan. 24, 2023

Periodontitis, which is a chronic inflammatory periodontal disease resulting in destroyed tissue, the leading cause of tooth loss adults. Many studies have found that immune responses are involved risk tissue damage. Therefore, we analyzed association between immunity and periodontitis using bioinformatics methods to further understand this disease.First, expression profiles healthy samples were downloaded from GEO database, including training dataset GSE16134 an external validation GSE10334. Then, differentially expressed genes identified limma package. Subsequently, cell infiltration was calculated by CIBERSORT algorithm. We linking ImmPort DisGeNet databases. In addition, some them selected construct diagnostic model via logistic stepwise regression analysis.Two hundred sixty be bacterial immune-related processes. analysis demonstrates significant differences abundance most cells samples, especially plasma cells. These results suggested doses play non-negligible role periodontitis. Twenty-one identified. And nine hub may key development Gene ontology analyses showed these response molecules origin, chemotaxis, chemokines. three model. its good performance demonstrated receiver operating characteristic curves, with area under curve 0.9424 for 0.9244 dataset.

Language: Английский

Citations

2