Prognostic evaluation of the novel blueprint of DNA methylation sites by integrating bulk RNA‐sequencing and methylation modification data in endometrial cancer DOI Open Access

Huanzhen Zhou,

Yingzhi Zhang, Jing Jin

et al.

The Journal of Gene Medicine, Journal Year: 2023, Volume and Issue: 26(1)

Published: Nov. 27, 2023

Abstract Introduction Endometrial cancer (EC) is a prevalent malignancy affecting the female population, with an increasing incidence among younger age groups. DNA methylation, common epigenetic modification, well‐established to play key role in progression. We suspected whether methylation could be used as biomarkers for EC prognosis. Methods In present study, we analyzed bulk RNA‐sequencing data from 544 patients and 430 TCGA‐UCEC cohort. applied weighted correlation network analysis select gene set associated panoptosis. conducted between transcriptomic of selected genes identify valuable sites. These sites were further screened by Cox regression least absolute shrinkage selection operator analysis. Immune microenvironment differences high‐risk low‐risk groups assessed using single‐sample enrichment analysi, xCell MCPcounter algorithms. Results Our results identified five (cg03906681, cg04549977, cg06029846, cg10043253 cg15658376) significant prognostic value EC. constructed model these sites, demonstrating satisfactory predictive performance. The group showed higher immune cell infiltration. Notably, site cg03906681 was negatively related CD8 T infiltration, whereas cg04549977 exhibited positive correlations particularly macrophages, activated B cells, dendritic cells myeloid‐derived suppressor cells. PD0325901_1060 strongly correlated risk scores, indicating potential therapeutic response patients. Conclusion have developed robust methylation‐based EC, which holds promise improving prognosis prediction personalized treatment approaches. findings may contribute better management patients, identifying those at who benefit tailored interventions.

Language: Английский

Exploring copper metabolism-induced cell death in gastric cancer: a single-cell RNA sequencing study and prognostic model development DOI Creative Commons
Yi Chen,

Yunmei Liao,

Lang Huang

et al.

Discover Oncology, Journal Year: 2024, Volume and Issue: 15(1)

Published: Sept. 27, 2024

Language: Английский

Citations

0
ATUAÇÃO DA ENFERMAGEM E O DIAGNÓSTICO PRECOCE DA CIRROSE HEPÁTICA: REVISÃO INTEGRATIVA DOI
Kárita Karyne de Mattos Brusnello, Júlia Cypriano Alvarez Lima, Elton Carlos de Almeida

et al.

Enfermagem em Foco, Journal Year: 2024, Volume and Issue: 15(Supl 2), P. 159 - 168

Published: Jan. 1, 2024

Citations

0
Extracellular vesicles in hepatocellular carcinoma: unraveling immunological mechanisms for enhanced diagnosis and overcoming drug resistance DOI Creative Commons

Lanqian Su,

Yu‐Xin Yue,

Yalan Yan

et al.

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

Published: Oct. 28, 2024

Current research is focused on utilizing EVs as a biopsy tool to improve the diagnostic accuracy of HCC, reduce surgical risk, and explore their potential in modulating drug resistance advancing immunotherapeutic strategies. Extracellular vesicles (EVs) have been increasingly recognized important non-invasive biomarkers hepatocellular carcinoma (HCC) due presence variety biomolecules within them, such proteins RNAs, etc. play key role early detection, diagnosis, treatment, prognostic monitoring HCC. These influence development HCC therapeutic response ways, including influencing tumor microenvironment, resistance, participating immune regulatory mechanisms. In addition, specific molecules miRNAs are regarded markers for treatment recurrence which certain space prospects. this paper, we summarize aspects markers, also discuss questions that may be faced markers.

Language: Английский

Citations

0
Role and therapeutic potential of E3s in the tumor microenvironment of hepatocellular carcinoma DOI Creative Commons
Hailin Wang, Qiang Li, Qinqin Tang

et al.

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

Published: Oct. 31, 2024

Hepatocellular carcinoma (HCC) is a high-incidence, poor-prognosis malignancy worldwide, requiring new strategies for treatment. Ubiquitination, especially ubiquitination through E3 ubiquitin ligases, plays an indispensable role in the development and progression of HCC. ligases are crucial enzymes ubiquitination, controlling degradation specific substrate proteins influencing various cellular functions, such as tumor cell proliferation, apoptosis, migration, immune evasion. In this review, we systematically summarize mechanisms HCC, with focus on significance RING, HECT, RBR types HCC progression. The review also looks at potential targeting to modulate microenvironment (TME) increase immunotherapy efficacy. Future studies will optimize treatment by formulating inhibitors or approaches that be based gene therapy order overcome resistance issues present treatments create optimism journey patients.

Language: Английский

Citations

0
Immunotherapy and pan-apoptotic characterization of the tumor microenvironment in gastric cancer (STAD): a single-cell multidimensional analysis DOI Creative Commons
Sheng Zhang, Jianhong Wang, Huan Zhang

et al.

Discover Oncology, Journal Year: 2024, Volume and Issue: 15(1)

Published: Oct. 13, 2024

The aim of this study was to elucidate the critical role autophagy-related gene aggregation in gastric cancer tumor microenvironment cells and investigate their major roles cellular functions. In particular, expression these genes tumor-associated fibroblast subtypes scrutinized an attempt explain cell-subpopulation-specific cell–cell communication regulation study, single-cell RNA sequencing data were first analyzed multiple steps, including preprocessing, cell clustering, classification. Cell subpopulations patterns identified using unsupervised non-negative matrix factorization (NMF) techniques. dynamic aggregates various types deciphered by pseudotime trajectory analysis (PTA). Intercellular performed CellChat R software package, revealing intricate exchange key signaling molecules between subpopulations, SCENIC used identify regulatory networks reveal mechanisms behind heterogeneity. associated with pan-apoptosis NMF decomposition analysis. Cell–cell revealed subpopulations. Dynamic aggregated pseudotemporal STAD observed PTA. subtype, different ligand-receptor interactions immunomodulation observed. By deeply analyzing comparing within intercellular communication, provides new insights into pan-apoptosis-related regulating immune responses functions cancer. These findings pave way for further exploration tumorigenesis regulation, as well laying foundation potential therapeutic strategies.

Language: Английский

Citations

0
Multi-omics analysis reveals the role of the autophagy-related gene AGT in chemotherapy resistance in colorectal cancer and the therapeutic potential of its inhibitors DOI Creative Commons

Wenjiao Cai,

Xiang Tao, Xiaoli Liu

et al.

Discover Oncology, Journal Year: 2024, Volume and Issue: 15(1)

Published: Nov. 18, 2024

Autophagy is a crucial mechanism for maintaining cellular homeostasis and responding to environmental stress, it closely linked tumor drug resistance. Through multi-omics analysis, this study explores the expression patterns, functions, potential role of autophagy-related gene Angiotensinogen (AGT) in colorectal cancer (CRC), particularly relation chemotherapy This first compared AGT between CRC normal tissues using GTEx TCGA databases. Differences were assessed Wilcoxon Rank Sum Tests, prognostic impact was evaluated through univariate Cox survival analysis meta-analysis. Functional enrichment performed limma fgsea packages. Drug sensitivity conducted based on CTRP database, while immune infiltration CIBERSORT ESTIMATE methods. Spatial transcriptomic characteristics explored 10x Visium technology deconvolution investigate correlation levels cell content.scRNA-seq data from sourced Tumor Immune Single Cell Hub (TISCH).Functional annotation with Single-sample set (SSGSEA), pseudotime Monocle 2 mapped their developmental trajectories. The inhibitors treatment analyzed drug-target Mendelian randomization.Finally, Phenome-Wide Association Study (PheWAS) evaluate genetic associations side effects inhibitors. significantly higher associated shorter recurrence-free (RFS). signaling pathways markedly enriched high group. positively correlated resistance chemotherapeutic agents such as gemcitabine, cisplatin, paclitaxel, 5-fluorouracil. revealed that predominantly expressed malignant regions. Single-cell identified 21 distinct subpopulations across 13 major types. samples, especially fibroblast C6 subpopulation. Tumor-related C1, C5, C6, C8 subpopulations. Pseudotime these subpopulations, terminal stages.Drug-target randomization indicated negative causal relationship risk both heart failure(ORdrug = 0.950, 95% CI, 0.912–0.990; P 0.014) CRC(ORdrug 0.874, CI: 0.792–0.964; 0.007).PheWAS showed no other traits, indicating its specificity low effects. Elevated chemotherapy, inhibition may offer therapeutic avenue cancer.

Language: Английский

Citations

0
Integrating multi-omics techniques and in vitro experiments reveals that GLRX3 regulates the immune microenvironment and promotes hepatocellular carcinoma cell proliferation and invasion through iron metabolism pathways DOI Creative Commons
Yang Li, Yuan Chen, Yang Zhang

et al.

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

Published: Nov. 25, 2024

Hepatocellular carcinoma (HCC) is a common malignancy worldwide, and its development closely related to abnormalities in iron metabolism. This study aims systematically analyze changes metabolism the tumor microenvironment of HCC using single-cell sequencing technology, investigate potential mechanisms by which regulation affects survival liver cancer patients.

Language: Английский

Citations

0
Prognostic evaluation of the novel blueprint of DNA methylation sites by integrating bulk RNA‐sequencing and methylation modification data in endometrial cancer DOI Open Access

Huanzhen Zhou,

Yingzhi Zhang, Jing Jin

et al.

The Journal of Gene Medicine, Journal Year: 2023, Volume and Issue: 26(1)

Published: Nov. 27, 2023

Abstract Introduction Endometrial cancer (EC) is a prevalent malignancy affecting the female population, with an increasing incidence among younger age groups. DNA methylation, common epigenetic modification, well‐established to play key role in progression. We suspected whether methylation could be used as biomarkers for EC prognosis. Methods In present study, we analyzed bulk RNA‐sequencing data from 544 patients and 430 TCGA‐UCEC cohort. applied weighted correlation network analysis select gene set associated panoptosis. conducted between transcriptomic of selected genes identify valuable sites. These sites were further screened by Cox regression least absolute shrinkage selection operator analysis. Immune microenvironment differences high‐risk low‐risk groups assessed using single‐sample enrichment analysi, xCell MCPcounter algorithms. Results Our results identified five (cg03906681, cg04549977, cg06029846, cg10043253 cg15658376) significant prognostic value EC. constructed model these sites, demonstrating satisfactory predictive performance. The group showed higher immune cell infiltration. Notably, site cg03906681 was negatively related CD8 T infiltration, whereas cg04549977 exhibited positive correlations particularly macrophages, activated B cells, dendritic cells myeloid‐derived suppressor cells. PD0325901_1060 strongly correlated risk scores, indicating potential therapeutic response patients. Conclusion have developed robust methylation‐based EC, which holds promise improving prognosis prediction personalized treatment approaches. findings may contribute better management patients, identifying those at who benefit tailored interventions.

Language: Английский

Citations

0