Chinese Science Bulletin (Chinese Version), Journal Year: 2023, Volume and Issue: unknown
Published: Dec. 1, 2023
Language: Английский
Heliyon, Journal Year: 2024, Volume and Issue: 10(10), P. e30877 - e30877
Published: May 1, 2024
Disulfidptosis, an innovative type of controlled cellular death linked to metabolic dysfunction, has garnered attention. However, there is limited knowledge regarding the involvement disulfidptosisrelated lnRNAs (DRlncRNAs) in laryngeal squamous cell carcinoma (LSCC). The objective our team this study seeks establish a DRlncRNAs signature, investigate their prognostic value LSCC, and explore associations with immune subpopulations, biological signaling pathways, exploring implications for drug sensitivity. We accessed LSCC patients' RNA-seq data pertinent clinical subsequent further analysis from Cancer Genome Atlas (TCGA) portal. A literature search was conducted focusing on disulfidptosis-related genes. Pearson correlation coefficients were calculated identify DRlncRNAs. Differential expression lncRNAs performed. Utilizing univariate Cox regression analysis, we identified disulfidptosis-associated lncRNAs. LASSO-Cox employed refine set construct signature. Various statistical techniques appraise model predictive performance. Subsequently, risk groups stratified based score derived superiority prognostication over traditional clinicopathological features patients demonstrated. Evident distinctions emerged between groups, particularly subpopulations like activated mast cells, eosinophils, NK cells. Finally, low-risk group demonstrated reduced IC50 values specific chemotherapeutics cisplatin gemcitabine. vitro experiments indicated differential behavior signature can serve as robust biomarker ability predict both prognosis therapeutic responses among LSCC.
Language: Английский
Citations
8
Journal of Translational Medicine, Journal Year: 2024, Volume and Issue: 22(1)
Published: May 4, 2024
Abstract Background Cancer stem cells (CSCs) and long non-coding RNAs (lncRNAs) are known to play a crucial role in the growth, migration, recurrence, drug resistance of tumor cells, particularly triple-negative breast cancer (TNBC). This study aims investigate stemness-related lncRNAs (SRlncRNAs) as potential prognostic indicators for TNBC patients. Methods Utilizing RNA sequencing data corresponding clinical information from TCGA database, employing Weighted Gene Co-expression Network Analysis (WGCNA) on mRNAsi sourced an online genes (SRGs) SRlncRNAs were identified. A model was developed using univariate Cox LASSO-Cox analysis based SRlncRNAs. The performance evaluated Kaplan–Meier analysis, ROC curves, ROC-AUC. Additionally, delved into underlying signaling pathways immune status associated with divergent prognoses Results research identified signature six (AC245100.6, LINC02511, AC092431.1, FRGCA, EMSLR, MIR193BHG) TNBC. Risk scores derived this found correlate abundance plasma cells. Furthermore, nominated chemotherapy drugs exhibited considerable variability between different risk score groups. RT-qPCR validation confirmed abnormal expression patterns these affirming biomarker. Conclusion not only demonstrates predictive power terms patient outcomes but also provides insights biology, pathways, prognosis. findings suggest possibility guiding personalized treatments, including checkpoint gene therapy strategies, SRlncRNA signature. Overall, contributes valuable knowledge towards advancing precision medicine context
Language: Английский
Citations
7
Frontiers in Oncology, Journal Year: 2023, Volume and Issue: 13
Published: Dec. 15, 2023
Clear cell renal carcinoma (ccRCC) stands as the prevailing subtype among kidney cancers, making it one of most prevalent malignancies characterized by significant mortality rates. Notably,mitochondrial permeability transition drives necrosis (MPT-Driven Necrosis) emerges a form death triggered alterations in intracellular microenvironment. MPT-Driven Necrosis, recognized distinctive type programmed death. Despite association Necrosis programmed-cell-death-related lncRNAs (MPTDNLs) with ccRCC, their precise functions within tumor microenvironment and prognostic implications remain poorly understood. Therefore, this study aimed to develop novel model that enhances predictions for ccRCC. Employing both univariate Cox proportional hazards Lasso regression methodologies, investigation distinguished genes differential expression are intimately linked prognosis.Furthermore, comprehensive risk assessment was established using multiple regression. Additionally, thorough evaluation conducted explore associations between characteristics MPTDNLs clinicopathological features, microenvironment, chemotherapy sensitivity, thereby providing insights into interconnectedness.The constructed based on signatures verified exhibit excellent prediction performance Cell Culture Transient Transfection, Transwell other experiments. By analyzing relevant studies, we identified scores derived from an independent determinant subsequently developed Nomogram combines clinical features associated assessment. Finally, application experimental techniques such qRT-PCR helped compare healthy tissues samples, well role proliferation migration clear cells. It found there correlation CDK6-AS1 ccRCC results, plays key Impressive predictive results were generated marker constructs these MPTDNLs. In research, formulated new framework integrating mitochondrial transition-induced necrosis. This holds potential enhancing patients establishing foundation optimizing therapeutic strategies.
Language: Английский
Citations
15
Hereditas, Journal Year: 2025, Volume and Issue: 162(1)
Published: Feb. 3, 2025
Abstract Background Mitochondrial permeability transition (MPT)-driven necrosis (MPTDN) is a non-apoptotic mode of cell death triggered by oxidative stress and cytosolic Ca 2+ overload. Recent evidence suggests that activation MPTND can effectively induce cancer may represent novel therapeutic strategy for cancer. Yet, the role MPTDN-related genes in non-small lung (NSCLC) remains unrevealed. This study aimed to identify biomarkers predicting prognosis guiding treatment NSCLC. Methods Gene expression profiles clinical information NSCLC were collected from public databases, obtained published article. Differential expressed control screened, molecular clusters obtained. Based on differentially (DGEs) between clusters, univariate Cox LASSO regression analyses performed screen biomarkers, followed nomogram construction. Correlations these immune infiltration, checkpoints, chemotherapeutic agents observed. Expression levels detected using RT-qPCR tissues cells. Moreover, biological function ARL14 NSLCL was verified vitro. Results Thirty-five differential identified, two Three with prognostic values finally including ARL14, ZDHHC11B, HLF. Among them, significantly upregulated tumor samples, while ZDHHC11B HLF downregulated. Nomogram containing three exhibited predictive accuracy 1, 3, 5-year survival rates. gene strongly associated most cells, drugs sensitivity. confirmed or cells consistent results bioinformatics analysis. Finally, knockdown inhibited malignant phenotype Conclusion We first comprehensive analysis MPTDN screened NSCLC-related as promising biomarkers. might be new potential target therapy
Language: Английский
Citations
0
European journal of medical research, Journal Year: 2025, Volume and Issue: 30(1)
Published: Feb. 18, 2025
Breast cancer is a highly prevalent tumor worldwide. Mitochondrial permeability transition (MPT)-driven necrosis novel type of cell death induced by mitochondrial membrane disruption. The roles MPT-driven in breast remain unclear. Gene expression and clinicopathologic features were extracted from Cancer Genome Atlas Expression Omnibus. We performed genome landscape analysis (MPTdn)-related genes, consensus clustering was conducted to construct MPTdn clusters. Next, risk model established based on the differentially expressed genes related MPTdn. grouped used external data sets verify stability model. Subsequently, immune correlation analysis, clinical assessment drug sensitivity conducted. Finally, candidate validated protein mRNA levels. A total 39 MPTdn-related identified our analysis. Most had different levels somatic mutations cancer, close interaction noted among them. composed BCL2A1, SCUBE2, NPY1R CLIC6 constructed. low-risk group better overall survival higher infiltration All three achieved excellent predictive efficacy. immunohistochemistry results indicated that at significantly lower tissues, transcriptome sequencing revealed BCL2A1 SCUBE2 greater nonrecurrence group. developed with efficacy could be as biomarkers, laying solid foundation for investigations therapeutic targets cancer.
Language: Английский
Citations
0
Frontiers in Genetics, Journal Year: 2025, Volume and Issue: 16
Published: March 24, 2025
Catabolic metabolites of tryptophan (Trp) are considered to be important microenvironmental factors by suppressing anti-tumor immune responses in cancers. Nevertheless, the effect Trp metabolism (Trp metabolism)-related genes metabolism-related on laryngeal squamous cell carcinoma (LSCC) progression is not yet clear. So, this study, TCGA-LSCC, GSE27020, and 40 TMRGs were extracted via public databases explore effects carcinoma. Firstly, Weighted Gene Co-expression Network Analysis (WGCNA) was adopted with LSCC samples TCGA-LSCC acquire key module, differentially expressed between normal from yielded differential expression analysis. Next, (DE-TMRGs) obtained model DEGs, prognostic identifde through multiple algorithms. Five genes, namely SERPINA1 , TMC8 RENBP SDS FAM107A finally identified. A risk established based expressions survival information while that divided into high low groups. Obviously, dysfunction exclusion score high-risk patients dramatically higher than low-risk patients, indicating subgroup exhibited reduced responsiveness immunotherapy. Besides, drug sensitivity analysis showed -risk notably sensitive Salubrinal, Lenalidomide, Metformin, more responsive Docetaxel, AUY922, Embelin. Eventually, two clusters had notable correlations prognosis. The above results indicated consisted ( ) constructed LSCC, contributing studies related prognosis treatment LSCC.
Language: Английский
Citations
0
Frontiers in Genetics, Journal Year: 2025, Volume and Issue: 16
Published: March 26, 2025
Breast cancer (BC) continues to pose a global health threat and presents challenges for treatment due its high heterogeneity. Recent advancements in the understanding of mitochondrial permeability transition (MPT) regulatory roles long non-coding RNAs (lncRNAs) offer potential insights stratification personalized BC. Although association between MPT lncRNAs has not been widely studied, few research studies have indicated impact on MPT, further deepening tumor. To identify reliable biomarkers associated with managing BC, bulk RNA-seq data MPT-related acquired from The Cancer Genome Atlas (TCGA) Genotype-Tissue Expression (GTEx) project were utilized assess BC patients. A scoring system, termed score (MPTRscore), was developed using LASSO-Cox regression 1,029 patients TCGA-BRCA. Meanwhile, superior prognostic accuracy MPTRscore demonstrated by comparing it biomarkers, including PAM50 subtyping standardization. Subsequently, clinical prediction model created incorporating variables. This analysis revealed two distinct groups characterized different biomolecular processes, tumor microenvironment (TME) patterns, outcomes. investigated through unsupervised consensus clustering TCGA-BRCA based MPTRscore-related genes. Additionally, identified as an independent factor showed guiding utility immunotherapy chemotherapy response. Specifically, low exhibited better prognosis responses compared those MPTRscore. Significantly, relevance results found be mediated lncRNA transcript RP11-573D15.8-018. In conclusion, clusters integrative biomarker predicting therapeutic molecular interactions underlying relationship uncovered, proving stratification. These findings may aid determination decision-making
Language: Английский
Citations
0
Discover Oncology, Journal Year: 2025, Volume and Issue: 16(1)
Published: April 4, 2025
Exploring the expression of Mitochondrial Permeability Transition Dependent Necrosis lncRNA in bladder cancer and elucidate their precise function within tumor microenvironment impact on prognosis. We employed a comprehensive bioinformatics approach to investigate influence cancer. Gene data, clinical mutation data are obtained from TCGA database. developed new prognostic model incorporating 6 lncRNAs. The predictive efficacy this for prognosis was validated. Furthermore, we investigated drug sensitivity. This study presents novel framework that holds great potential enhancing prediction accuracy optimizing treatment strategies patients with disease.
Language: Английский
Citations
0
Brazilian Journal of Otorhinolaryngology, Journal Year: 2025, Volume and Issue: 91(4), P. 101634 - 101634
Published: May 1, 2025
Language: Английский
Citations
0
Frontiers in Pharmacology, Journal Year: 2024, Volume and Issue: 15
Published: Sept. 9, 2024
Gastric cancer (GC) is a prevalent form of worldwide and has high death rate, with less than 40% patients surviving for 5 years. GC demonstrates vital characteristic evading regulatory cell (RCD). However, the extent to which RCD patterns are clinically significant in not been well investigated. The study created index (RCDI) signature by employing 101 machine-learning algorithms. These algorithms were based on expression files 1292 from 6 multicenter cohorts. RCDI reliable robust determinant likelihood general. Furthermore, precision surpasses that 20 signatures have previously disclosed. presence closely linked immunological characteristics, such as infiltration immune cells, immunotherapy markers, activation immune-related functions. This suggests there higher level activity cases signature. Collectively, use potential be strong encouraging method enhancing clinical results individual individuals GC.
Language: Английский
Citations
2