International Ophthalmology, Год журнала: 2024, Номер 44(1)
Опубликована: Ноя. 26, 2024
Язык: Английский
Frontiers in Aging Neuroscience, Год журнала: 2022, Номер 14
Опубликована: Июль 7, 2022
Alzheimer's disease (AD), the most common neurodegenerative disease, remains unclear in terms of its underlying causative genes and effective therapeutic approaches. Meanwhile, abnormalities iron metabolism have been demonstrated patients mouse models with AD. Therefore, this study sought to find hub based on that can influence diagnosis treatment First, gene expression profiles were downloaded from GEO database, including non-demented (ND) controls AD samples. Fourteen metabolism-related sets MSigDB yielding 520 genes. The final nine associated obtained by differential analysis WGCNA brain tissue samples GSE132903. GO revealed these mainly involved two major biological processes, autophagy metabolism. Through stepwise regression logistic analyses, we selected four construct a diagnostic model was validated blood GSE63061 GSE85426, AUC values showed had relatively good performance. In addition, immune cell infiltration correlation different factors further explored. results suggested may also play an important role immunity Finally, eight drugs targeting retrieved DrugBank some which shown be useful for or other concomitant conditions, such as insomnia agitation. conclusion, is expected guide detecting several blood. These assist understanding development drug
Язык: Английский
Процитировано
29
Frontiers in Genetics, Год журнала: 2022, Номер 13
Опубликована: Авг. 25, 2022
Background: Cellular senescence is a novel hallmark of cancer associated with patient outcomes and tumor immunotherapy. However, the value cellular senescence-related long non-coding RNAs (lncRNAs) in predicting prognosis immunotherapy response for stomach adenocarcinoma (STAD) patients needs further investigation. Methods: The transcriptome corresponding clinical information STAD genes were, respectively, downloaded from Cancer Genome Atlas (TCGA) CellAge databases. Differential expression analysis coexpression were performed to obtain lncRNAs. Univariate regression least absolute shrinkage selection operator (LASSO) Cox conducted establish lncRNA prognostic signature (CSLPS). Next, survival curve, ROC nomogram developed assess capacity predictive models. Moreover, principal component (PCA), gene set enrichment (GSEA), microenvironment (TME), mutation burden (TMB), microsatellite instability (MSI), immune dysfunction exclusion (TIDE) score between high- low-risk groups. Results: A CSLPS involving fifteen lncRNAs (REPIN1-AS1, AL355574.1, AC104695.3, AL033527.2, AC083902.1, TYMSOS, LINC00460, AC005165.1, AL136115.1, AC007405.2, AL391152.1, SCAT1, AC129507.1, AL121748.1, ADAMTS9-AS1) was developed. According nomogram, risk model based on an independent factor could predict 1-, 3-, 5-year overall patients. GSEA suggested that high-risk group mainly Toll-like receptor, JAK/STAT, NOD-like chemokine signaling pathways. Further revealed better had higher TMB, proportion high (MSI-H), infiltration, lower TIDE scores. Conclusion: fifteen-CSlncRNA outcomes, may be more sensitive
Язык: Английский
Процитировано
29
IBRO Neuroscience Reports, Год журнала: 2024, Номер 16, С. 317 - 328
Опубликована: Фев. 3, 2024
Schizophrenia (SCZ) is a prevalent and serious mental disorder, the exact pathophysiology of this condition not fully understood. In previous studies, it has been proven that ferroprotein levels are high in SCZ. It also shown inflammatory response may modify fibromodulin. Accumulating evidence indicates strong link between metabolism ferroptosis. Therefore, present study aims to identify ferroptosis-linked hub genes further investigate role ferroptosis plays development
Язык: Английский
Процитировано
7
Frontiers in Pharmacology, Год журнала: 2022, Номер 13
Опубликована: Авг. 15, 2022
Gastric cancer (GC) is a malignant of the digestive tract and life-threatening disease worldwide. Ferroptosis newly discovered form regulated cell death, which involves accumulation iron-dependent lipid peroxides. It has been found that ferroptosis plays an important regulatory role in occurrence, development, drug resistance, prognosis GC. Non-coding RNAs (ncRNAs) play critical occurrence progression variety diseases including In recent years, ferroptosis-related ncRNAs (miRNA, lncRNA, circRNA) GC attracted more attention. Herein, we briefly summarize roles functions tumorigenesis, prognosis. We also prospected future research direction challenges
Язык: Английский
Процитировано
27
Biomedicine & Pharmacotherapy, Год журнала: 2023, Номер 163, С. 114407 - 114407
Опубликована: Апрель 24, 2023
The frequent metastasis of gastric cancer (GC) complicates the cure and therefore development effective diagnostic therapeutic approaches is urgently necessary. In recent years, lncRNA has emerged as a drug target in treatment GC, particularly areas immunity, metabolism, metastasis. This led to demonstration importance these RNAs prognostic, agents. this review, we provide an overview biological activities lncRNAs GC update latest pathological activities, prognostic strategies, options for GC-related lncRNAs.
Язык: Английский
Процитировано
16
Mathematical Biosciences & Engineering, Год журнала: 2023, Номер 20(8), С. 14136 - 14157
Опубликована: Янв. 1, 2023
Drugs, which treat various diseases, are essential for human health. However, developing new drugs is quite laborious, time-consuming, and expensive. Although investments into drug development have greatly increased over the years, number of approvals each year remain low. Drug repositioning deemed an effective means to accelerate procedures because it can discover novel effects existing drugs. Numerous computational methods been proposed in repositioning, some were designed as binary classifiers that predict drug-disease associations (DDAs). The negative sample selection was a common defect this method. In study, reliable scheme, named RNSS, presented, screen out pairs diseases with low probabilities being actual DDAs. This scheme considered information from k-neighbors one network, including their drug. Then, scoring system set up evaluate diseases. To test utility three classic classification algorithms (random forest, bayes network nearest neighbor algorithm) employed build using samples selected by RNSS. cross-validation results suggested such provided nearly perfect performance significantly superior those traditional previous schemes.
Язык: Английский
Процитировано
16
Discover Oncology, Год журнала: 2025, Номер 16(1)
Опубликована: Март 12, 2025
Asian cancer patients have become the highest morbidity and mortality group, gastrointestinal tumors account for majority of them, so it is urgent to find effective targets. Therefore, ferroptosis-related lncRNAs models were established predict prognosis clinical immune characteristics GI cancer. RNA sequencing data collected from TCGA database (LIHC, STAD, ESCA, PAAD, COAD, CHOL, READ) with in Asia. Download ferrodroptosis genes FerrDb. Through R language, differential identified, prognostic related LncRNAs screened, risk scores obtained by formula build models. Survival analysis, heat map, COX regression ROC used evaluate model. Establish Nomogram clinically relevant maps. GSEA software was analyze gene enrichment immune-related high low groups. LncRNA expression validated through paired sample analysis qRT-PCR, drug sensitivity also analyzed. The transcriptome 297 cases 322 downloaded TCGA, intersection obtaine. Cox revealed 48 associated prognosis. survival heatmap, ROC, found that model highly accurate efficient predicting KEGG-related showed 12 pathways significantly expressed low-risk group. Four functions higher high-risk group than all checkpoints three exhibited varying levels across different data. Our results reveal innovative strong evidence can be as biomarkers treatment
Язык: Английский
Процитировано
0
Human & Experimental Toxicology, Год журнала: 2023, Номер 42
Опубликована: Март 1, 2023
This study aimed to investigate the impact of esketamine on intestinal flora and microenvironment in mice using mRNA transcriptome sequencing 16S rRNA sequencing.Ten female were randomly assigned two groups. One group received daily intramuscular injections sterile water, while other esketamine. After 24 days, sacrificed, their tissues contents collected for sequencing. The intergroup differences mouse analyzed. Differentially expressed genes utilized construct ceRNA networks transcription factor regulatory assess effects tissue genes.Esketamine significantly altered abundance microbiota, including Adlercreutzia equolifaciens Akkermansia muciniphila. Differential expression analysis revealed 301 upregulated 106 downregulated genes. network consisted 6 lncRNAs, 44 miRNAs, 113 mRNAs, included 13 factors 53 target Gene Ontology enrichment indicated that differentially primarily associated with immunity, B-cell activation humoral immune response mediation. biological processes involved transport, such as organic anion transport monocarboxylic acid transport. functional annotation TF was mainly related epithelial cells, cell proliferation regulation.Esketamine induces changes gut microbiota microenvironment, impacting environment modes.
Язык: Английский
Процитировано
5
Frontiers in Oncology, Год журнала: 2022, Номер 12
Опубликована: Окт. 26, 2022
Recent studies have identified cuproptosis, a new mechanism of regulating cell death. Accumulating evidence suggests that copper homeostasis is associated with tumorigenesis and tumor progression, however, the clinical significance cuproptosis in gastric cancer (GC) unclear. In this study, we obtained 26 prognostic cuproptosis-related lncRNAs (CRLs) based on 19 genes (CRGs) via Pearson correlation analysis, differential expression univariate Cox analysis. A risk model 10 CRLs was established least absolute shrinkage selection operator (LASSO) regression analysis multivariate proportional hazards to predict prognosis immune landscape GC patients from The Cancer Genome Atlas (TCGA). has excellent accuracy efficiency predicting (Area Under Curve (AUC) = 0.742, 0.803, 0.806 at 1,3,5 years, respectively, P < 0.05 ). addition, found score negatively correlated infiltration natural killer (NK) cells helper T cells, while positively monocytes, macrophages, mast neutrophils. Moreover, evaluated difference drug sensitivity different patterns. Furthermore, low-risk showed higher mutation burden (TMB) better immunotherapy response than high-risk patients. end, confirmed oncogenic role AL121748.1 which exhibited highest Hazard Ratio (HR) value among cellular functional experiments. conclusion, our shows significant immunity could be applied
Язык: Английский
Процитировано
8
Frontiers in Cardiovascular Medicine, Год журнала: 2022, Номер 9
Опубликована: Июнь 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.
Язык: Английский
Процитировано
7