Prognostic value of CDKN2A in head and neck squamous cell carcinoma via pathomics and machine learning

Journal of Cellular and Molecular Medicine, Journal Year: 2024, Volume and Issue: 28(9)

Published: May 1, 2024

Abstract This study aims to enhance the prognosis prediction of Head and Neck Squamous Cell Carcinoma (HNSCC) by employing artificial intelligence (AI) analyse CDKN2A gene expression from pathology images, directly correlating with patient outcomes. Our approach introduces a novel AI‐driven pathomics framework, delineating more precise relationship between survival rates compared previous studies. Utilizing 475 HNSCC cases TCGA database, we stratified patients into high‐risk low‐risk groups based on thresholds. Through analysis 271 available slides, extracted 465 distinctive features construct Gradient Boosting Machine (GBM) model. model was then employed compute Pathomics scores (PS), predicting levels validation for accuracy pathway association analysis. demonstrates significant correlation higher improved median overall (66.73 months high vs. 42.97 low expression, p = 0.013), establishing CDKN2A's prognostic value. The pathomic exhibited exceptional predictive (training AUC: 0.806; 0.710) identified strong link cell cycle activation pathways. Validation through tissue microarray corroborated capacity our Confirming as crucial marker in HNSCC, this advances existing literature implementing an evaluation. innovative methodology offers cost‐efficient non‐invasive alternative traditional diagnostic procedures, potentially revolutionizing personalized medicine oncology.

Language: Английский

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Network pharmacology: an efficient but underutilized approach in oral, head and neck cancer therapy—a review

Frontiers in Pharmacology, Journal Year: 2024, Volume and Issue: 15

Published: July 5, 2024

The application of network pharmacology (NP) has advanced our understanding the complex molecular mechanisms underlying diseases, including neck, head, and oral cancers, as well thyroid carcinoma. This review aimed to explore therapeutic potential natural using compounds traditional Chinese medicines for combating these malignancies. NP serves a pivotal tool that provides comprehensive view interactions among compounds, genes, thereby contributing advancement disease treatment management. In parallel, this discusses significance publicly accessible databases in identification oral, neck cancer-specific genes. These databases, those head cancer, genomic variants offer valuable insights into miRNAs, drugs, genetic variations associated with cancers. They serve indispensable resources researchers, clinicians, drug developers, pursuit precision medicine improved challenging summary, advancements could improve globalization modernization prognostic targets aid development innovative drugs. Furthermore, will be an eye-opener researchers working on from by applying approaches.

Language: Английский

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Artificial Intelligence in Head and Neck Cancer: Innovations, Applications, and Future Directions

Current Oncology, Journal Year: 2024, Volume and Issue: 31(9), P. 5255 - 5290

Published: Sept. 6, 2024

Artificial intelligence (AI) is revolutionizing head and neck cancer (HNC) care by providing innovative tools that enhance diagnostic accuracy personalize treatment strategies. This review highlights the advancements in AI technologies, including deep learning natural language processing, their applications HNC. The integration of with imaging techniques, genomics, electronic health records explored, emphasizing its role early detection, biomarker discovery, planning. Despite noticeable progress, challenges such as data quality, algorithmic bias, need for interdisciplinary collaboration remain. Emerging innovations like explainable AI, AI-powered robotics, real-time monitoring systems are poised to further advance field. Addressing these fostering among experts, clinicians, researchers crucial developing equitable effective applications. future HNC holds significant promise, offering potential breakthroughs diagnostics, personalized therapies, improved patient outcomes.

Language: Английский

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ERBB2 as a Multifaceted Biomarker in Head and Neck Squamous Cell Carcinoma: In Silico and In Vitro Evidence

Published: Jan. 1, 2025

Background: Head and neck squamous cell carcinoma (HNSC) is a prevalent aggressive cancer, with ERBB2 (also known as HER2) being gene of interest due to its role in various cancers. This study investigates the expression, promoter methylation, potential prognostic significance HNSC, aiming elucidate disease's progression biomarker. Methods: utilized multiple bioinformatics tools databases, including UALCAN, GEPIA2, cBioPortal, perform expression methylation analyses, survival assessments, enrichment studies. Validation was conducted using RT-qPCR HNSC normal lines. Results: significantly down-regulated samples compared tissues. down-regulation consistent across clinical parameters, age, gender, race, cancer stages. The hypermethylated samples, providing mechanism for reduced expression. Kaplan-Meier analysis revealed that low associated poorer overall patients. Functional analyses indicated genes are involved critical pathways such ErbB signaling pathway, EGFR tyrosine kinase inhibitor resistance, PI3K-Akt pathway. Analysis genetic mutations showed mutation frequency (3%) suggesting minor these disease progression. confirmed lower lines (FaDu Cal27) control (HOK HaCaT). Conclusion: highlights significant hypermethylation which correlates outcomes. These findings suggest plays crucial pathogenesis may serve biomarker therapeutic target this type.

Language: Английский

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Biomarkers for Predicting Second Primary Malignancy Risk in Head and Neck Squamous Cell Carcinoma: An Integrated Molecular Perspective

Critical Reviews in Oncology/Hematology, Journal Year: 2025, Volume and Issue: unknown, P. 104711 - 104711

Published: March 1, 2025

Language: Английский

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Identification of thyroid cancer biomarkers using WGCNA and machine learning

European journal of medical research, Journal Year: 2025, Volume and Issue: 30(1)

Published: April 5, 2025

Language: Английский

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Identification of programmed cell death-related genes and construction of a prognostic model in oral squamous cell carcinoma using single-cell and transcriptome analysis

Discover Oncology, Journal Year: 2025, Volume and Issue: 16(1)

Published: May 9, 2025

Oral squamous cell carcinoma (OSCC) is characterized by poor prognosis and high mortality. Understanding programmed death-related genes could provide valuable insights into disease progression treatment strategies. RNA-sequencing data from 341 OSCC tumor tissues 31 healthy samples were analyzed TCGA database, with validation using 76 GSE41613. Single-cell RNA sequencing was obtained GSE172577 (6 samples). Differentially expressed (DEGs) identified intersected 1,254 genes. A protein-protein interaction network constructed, key modules identified. Univariate Cox, LASSO, multivariate Cox regression analyses performed to build a prognostic model. Model performance evaluated Kaplan-Meier analysis, ROC curves, nomogram validation. The study 200 candidate the intersection of DEGs genes, which further refined 57 hub through PPI analysis. signature consisting five (MET, GSDMB, KIT, PRKAG3, CDKN2A) established validated. model demonstrated good predictive in both training cohorts (AUC > 0.6 for 1-, 2-, 3-year survival). analysis revealed that predominantly stromal epithelial cells. Cell communication indicated strong interactions between This developed validated novel five-gene based on shows promising clinical application potential risk stratification personalized patients.

Language: Английский

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Artificial Intelligence in Head and Neck Cancer: Innovations, Applications, and Future Directions

Published: Aug. 9, 2024

Artificial Intelligence (AI) is revolutionizing head and neck cancer (HNC) care by providing innovative tools that enhance diagnostic accuracy personalize treatment strategies. This review highlights the advancements in AI technologies, including deep learning natural language processing, their applications HNC. The integration of with imaging techniques, genomics, electronic health records explored, emphasizing its role early detection, biomarker discovery, planning. Despite noticeable progress, challenges such as data quality, algorithmic bias, need for interdisciplinary collaboration remain. Emerging innovations like explainable AI, AI-powered robotics, real-time monitoring systems are poised to further advance field. Addressing these fostering among experts, clinicians, researchers crucial developing equitable effective applications. future HNC holds significant promise, offering potential breakthroughs diagnostics, personalized therapies, improved patient outcomes.

Language: Английский

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A random survival forest-based pathomics signature classifies immunotherapy prognosis and profiles TIME and genomics in ES-SCLC patients

Cancer Immunology Immunotherapy, Journal Year: 2024, Volume and Issue: 73(12)

Published: Oct. 3, 2024

Language: Английский

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The Potential Association of CDKN2A and Ki-67 Proteins in View of the Selected Characteristics of Patients with Head and Neck Squamous Cell Carcinoma

Current Issues in Molecular Biology, Journal Year: 2024, Volume and Issue: 46(11), P. 13267 - 13280

Published: Nov. 20, 2024

Head and neck squamous cell carcinoma (HNSCC) is the sixth most prevalent type of cancer worldwide. Not all mechanisms associated with cycle disturbances have been recognized in HNSCC. The aim this study was to examine concentration CDKN2A Ki-67 proteins 54 tumor margin samples HNSCC evaluate their association clinical demographic variables. ELISA method used measure concentrations tissue homogenates. A significantly higher found OSCC as compared OPSCC+HPSCC+LSCC. An inverse correlation observed for Ki-67. We showed an between level parameters N tumors. patients concomitant diseases had levels no diseases. analysis effect drinking habits on demonstrated a statistical difference regular or occasional users stimulants who do not use any samples. Moreover, we HPV status tested may be dependent environmental factors. Our results that changes protein subtypes reflect different molecular pathways development also responsible involvement carcinogenesis process.

Language: Английский

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