disulfidptosis

二硫化物下垂
  • 文章类型: Journal Article
    溃疡性结肠炎(UC)表现为肠道的慢性炎症,以持续的免疫系统失调为标志。二硫化物下垂,一种新发现的细胞死亡机制,与炎症的发生和进展密切相关。然而,在UC中的作用目前尚不清楚.
    我们在多个UC数据集中筛选了与二硫键凋亡相关的差异表达基因(DEGs),使用套索回归缩小目标基因数量,并进行了免疫浸润分析,构建了临床诊断模型。此外,在接受生物治疗的UC患者中,我们探讨了与二硫键下垂相关的关键基因与疾病缓解之间的关联.最后,我们证实了FHC细胞和UC组织样本中关键基因的表达。
    在差异分析中,我们确定了20个DEGs与二硫键升高相关。免疫浸润结果显示5个基因(PDLIM1、SLC7A11、MYH10、NUBPL、OXSM)与免疫细胞和途径表现出很强的相关性。使用GO,KEGG和WGCNA分析,我们发现,与二硫键下垂相关基因表达高度相关的基因模块在炎症相关通路中显著富集.此外,我们开发了一个列线图基于这5个免疫相关的双硫细胞凋亡基因诊断UC,显示出强大的诊断能力和临床疗效。Kaplan-Meier生存分析显示,这些细胞基因表达水平的变化与接受生物治疗的UC患者的疾病缓解之间存在显着联系。根据以前的研究,在UC细胞模型和组织样本中均观察到目标基因相似的表达变化.
    本研究利用生物信息学分析和机器学习来识别和分析多个UC数据集中与二硫键沉积相关的特征。这增强了我们对二硫键下垂在UC肠道免疫和炎症中的作用的理解,为开发UC的创新治疗方法提供新的视角。
    UNASSIGNED: Ulcerative Colitis (UC) manifests as a chronic inflammatory condition of the intestines, marked by ongoing immune system dysregulation. Disulfidptosis, a newly identified cell death mechanism, is intimately linked to the onset and advancement of inflammation. However, the role of disulfidptosis in UC remains unclear.
    UNASSIGNED: We screened differentially expressed genes (DEGs) associated with disulfidptosis in multiple UC datasets, narrowed down the target gene number using lasso regression, and conducted immune infiltration analysis and constructed a clinical diagnostic model. Additionally, we explored the association between disulfidptosis-related key genes and disease remission in UC patients receiving biologic therapy. Finally, we confirmed the expression of key genes in FHC cells and UC tissue samples.
    UNASSIGNED: In the differential analysis, we identified 20 DEGs associated with disulfidptosis. Immune infiltration results revealed that five genes (PDLIM1, SLC7A11, MYH10, NUBPL, OXSM) exhibited strong correlations with immune cells and pathways. Using GO, KEGG and WGCNA analyses, we discovered that gene modules highly correlated with disulfidptosis-related gene expression were significantly enriched in inflammation-related pathways. Additionally, we developed a nomogram based on these five immune-related disulfidptosis genes for UC diagnosis, showing robust diagnostic capability and clinical efficacy. Kaplan-Meier survival analysis revealed a significant link between changes in the expression levels of these cell genes and disease remission in UC patients receiving biologic therapy. In line with previous studies, similar expression changes of the target gene were seen in both UC cell models and tissue samples.
    UNASSIGNED: This study utilized bioinformatic analysis and machine learning to identify and analyze features associated with disulfidptosis in multiple UC datasets. This enhances our comprehension of the role disulfidptosis plays in intestinal immunity and inflammation in UC, providing new perspectives for developing innovative treatments for UC.
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  • 文章类型: Journal Article
    背景:二硫键凋亡是一种新发现的由二硫键应激引发的细胞死亡机制。因此,全面了解胃癌(GC)中存在的二硫键下垂特征,可以极大地促进该疾病个性化治疗策略的发展.
    方法:我们使用共识聚类来鉴定二硫下垂的各种亚型,并检查与每种亚型相关的不同肿瘤微环境(TME)。使用二硫化物下垂(Dis)评分来量化每位患者的二硫化物下垂亚型。随后,我们评估了Dis评分对GC预后和免疫疗效的预测价值.最后,我们进行了体外实验,以探讨胶原蛋白X(COL10A1)对GC进展的影响。
    结果:确定了两种与二硫键沉积相关的分子亚型(A和B簇),每个都有不同的预后,肿瘤微环境(TME),免疫细胞浸润,和生物学途径。A簇,其特征是高表达的二硫化物凋亡基因,免疫评分高,但预后差。此外,Dis评分被证明可用于预测GC患者的预后和免疫反应。低Dis评分组的患者预后较好,对免疫治疗的敏感性增加。最后,我们的实验结果验证了COL10A1表达的下调减弱了GC细胞的增殖和迁移能力,同时促进了细胞凋亡。
    结论:本研究表明,双硫上睑下垂特征有助于GC患者的风险分层和个性化治疗。研究结果为抗肿瘤策略提供了有价值的理论支持。
    BACKGROUND: Disulfidptosis is a newly identified mechanism of cell death triggered by disulfide stress. Thus, gaining a comprehensive understanding of the disulfidptosis signature present in gastric cancer (GC) could greatly enhance the development of personalized treatment strategies for this disease.
    METHODS: We employed consensus clustering to identify various subtypes of disulfidptosis and examined the distinct tumor microenvironment (TME) associated with each subtype. The Disulfidptosis (Dis) score was used to quantify the subtype of disulfidptosis in each patient. Subsequently, we assessed the predictive value of Dis score in terms of GC prognosis and immune efficacy. Finally, we conducted in vitro experiments to explore the impact of Collagen X (COL10A1) on the progression of GC.
    RESULTS: Two disulfidptosis-associated molecular subtypes (Discluster A and B) were identified, each with distinct prognosis, tumor microenvironment (TME), immune cell infiltration, and biological pathways. Discluster A, characterized by high expression of disulfidptosis genes, exhibited a high immune score but poor prognosis. Furthermore, the Dis score proved useful in predicting the prognosis and immune response in GC patients. Those in the low Dis score group showed better prognosis and increased sensitivity to immunotherapy. Finally, our experimental findings validated that downregulation of COL10A1 expression attenuates the proliferation and migration capabilities of GC cells while promoting apoptosis.
    CONCLUSIONS: This study demonstrates that the disulfidptosis signature can assist in risk stratification and personalized treatment for patients with GC. The results offer valuable theoretical support for anti-tumor strategies.
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  • 文章类型: Journal Article
    晚期癌症患者耐药性的出现显着降低了他们的预后。最近,二硫化物下垂,一种新的细胞死亡形式,已经被确认,由过度的二硫化物形成引发,导致细胞收缩和F-肌动蛋白收缩。以前的研究已经确定了15个必需基因(FLNA,FLNB,MYH9,TLN1,ACTB,MYL6MYH10CAPZB,DSTN,IQGAP1,ACTN4,PDLIM1,CD2AP,INF2,SLC7A11)与二硫键下垂有关。这项研究从Xena获得了泛癌症mRNA表达数据,以彻底评估二硫凋亡相关基因的分子和临床特征。通过无监督聚类,mRNA表达数据鉴定了二硫键下垂相关基因的表达水平和与这种形式的细胞死亡相关的潜在簇。Kaplan-Meier存活曲线说明了不同簇与总生存期之间的相关性。研究结果表明,高表达的二硫键相关基因与肝癌的低生存率有关。利用GDSC数据库分析了198种药物的二硫化物凋亡相关基因与AUC之间的关系。结果表明,12个双硫凋亡相关基因影响索拉非尼抗性,正如GSE109211数据集中与索拉非尼抗性相关的差异基因的交集所揭示的那样。其中,发现MYH9基因在两者中都起着至关重要的作用。最后,实验证据证实,MYH9通过二硫键下垂样改变减轻肝细胞癌中的索拉非尼耐药.这项研究确定了二硫键下垂是增强肿瘤细胞对药物敏感性的有希望的途径。提供新的治疗观点,为未来的研究在癌症患者中的二硫键下垂和耐药性。
    The onset of drug resistance in advanced cancer patients markedly diminishes their prognosis. Recently, disulfidptosis, a novel form of cell death, has been identified, triggered by excessive disulfide formation leading to cell shrinkage and F-actin contraction. Previous studies have identified 15 essential genes (FLNA, FLNB, MYH9, TLN1, ACTB, MYL6, MYH10, CAPZB, DSTN, IQGAP1, ACTN4, PDLIM1, CD2AP, INF2, SLC7A11) associated with disulfidptosis. This study sourced pan-cancer mRNA expression data from Xena to thoroughly evaluate the molecular and clinical characteristics of disulfidptosis-related genes. Through unsupervised clustering, mRNA expression data identified the expression levels of disulfidptosis-related genes and potential clusters related to this form of cell death. Kaplan-Meier survival curves illustrated the correlation between different clusters and overall survival. The findings reveal that high expression of disulfidptosis-related genes is linked to poor survival in liver cancer. The GDSC database was utilized to analyze the relationship between disulfidptosis-related genes and the AUC of 198 drugs. The results demonstrate that 12 disulfidptosis-related genes influence sorafenib resistance, as revealed by the intersection of differential genes related to sorafenib resistance from the GSE109211 dataset. Among them, the MYH9 gene was found to play a crucial role in both. Finally, experimental evidence confirmed that MYH9 mitigates sorafenib resistance in hepatocellular carcinoma through disulfidptosis-like changes. This study identifies disulfidptosis as a promising avenue for enhancing the sensitivity of tumor cells to drugs, offering new therapeutic perspectives for future research on disulfidptosis and drug resistance in cancer patients.
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  • 文章类型: Journal Article
    本研究旨在探讨长链非编码RNA(lncRNAs)在结肠腺癌(COAD)中的作用和预后意义。使用TCGA数据库的临床数据和转录组概况。对先前研究的分析鉴定出10个二硫化物凋亡相关基因(DRGs)。我们使用这些基因构建了一个可以独立准确预测COAD患者预后的特征。Kaplan-Meier(K-M)曲线分析显示低危组预后较好。借助多变量Cox回归分析,根据患者签名得出的风险评分可独立预测结局.利用列线图,接收器工作特性(ROC)曲线,和主成分分析(PCA),签名的预测能力也得到了证实。有趣的是,免疫疗法,尤其是PD-1免疫检查点抑制,更有可能使低风险患者受益。某些抗癌剂的IC50水平在高风险组中较低。最后,结肠癌细胞系中的qRT-PCR分析显示,与正常细胞系相比,lncRNACASC9,ZEB1-AS1,ATP2A1-AS1,SNHG7,AL683813.1和AP003555.1的水平升高,FAM160A1-DT和AC112220.2的水平降低。这个签名提供了对预后的见解,肿瘤微环境,以及COAD患者的免疫治疗和抗肿瘤药物的选择。
    This study aims to investigate the role and prognostic significance of long non-coding RNAs (lncRNAs) associated with disulfidptosis in colon adenocarcinoma (COAD). The TCGA database\'s clinical data and transcriptome profiles were employed. Analysis of previous studies identified 10 disulfidptosis-related genes (DRGs). We used these genes to construct a signature that could independently and accurately predict the prognosis of patients with COAD. The Kaplan-Meier (K-M) curve analysis showed that the lower-risk group had a better prognosis. With the help of multivariate Cox regression analysis, the risk score produced from the patient\'s signature might independently predict the outcomes. Utilizing a nomogram, the receiver operating characteristic (ROC) curve, and principal component analysis (PCA), the signature\'s predictive ability was also confirmed. It\'s interesting to note that immunotherapy, especially PD-1 immune checkpoint suppression, was more likely to benefit low-risk patients. The IC50 levels for certain anticancer agents were lower in the high-risk group. Finally, qRT-PCR analyses in colon cancer cell lines revealed elevated levels of lncRNAs CASC9, ZEB1-AS1, ATP2A1-AS1, SNHG7, AL683813.1, and AP003555.1, and reduced levels of FAM160A1-DT and AC112220.2, compared to normal cell lines. This signature offers insights into prognosis, tumor microenvironment, and options for immunotherapy and antitumor drugs in patients with COAD.
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  • 文章类型: Journal Article
    有限的治疗选择和不良的预后对肺鳞状细胞癌(LUSC)的治疗提出了重大挑战。二硫键下垂影响癌症进展和预后。我们使用与二硫键下垂相关的长非编码RNA(lncRNAs)开发了一种预后特征来预测LUSC患者的预后。从TCGA数据库下载LUSC的基因表达矩阵和临床信息。共表达分析鉴定了209个与二硫键沉积相关的lncRNAs。LASSO-Cox回归分析确定了9个关键的lncRNAs,为建立预后模型奠定了基础。Kaplan-Meier和ROC曲线证实了模型的有效性。Cox回归分析将风险评分(RS)确定为与总生存率呈负相关的独立预后因素。基于RS的列线图显示了LUSC患者预后的良好预测性能。使用ESTIMATE探索RS与免疫功能之间的关系,CIBERSORT,和ssGSEA算法。根据TIDE数据库,RS与免疫治疗反应性呈负相关.GDSC数据库显示,49种药物对低风险组有益,25种药物对高风险组有益。在SW900细胞中沉默C10orf55表达降低了侵袭力和迁移潜能。总之,这个基于TCGA-LUSC数据的lncRNA模型可以有效预测预后并帮助临床决策.
    Limited treatment options and poor prognosis present significant challenges in the treatment of lung squamous cell carcinoma (LUSC). Disulfidptosis impacts cancer progression and prognosis. We developed a prognostic signature using disulfidptosis-related long non-coding RNAs (lncRNAs) to predict the prognosis of LUSC patients. Gene expression matrices and clinical information for LUSC were downloaded from the TCGA database. Co-expression analysis identified 209 disulfidptosis-related lncRNAs. LASSO-Cox regression analysis identified nine key lncRNAs, forming the basis for establishing a prognostic model. The model\'s validity was confirmed by Kaplan-Meier and ROC curves. Cox regression analysis identified the risk score (RS) as an independent prognostic factor inversely correlated with overall survival. A nomogram based on the RS demonstrated good predictive performance for LUSC patient prognosis. The relationship between RS and immune function was explored using ESTIMATE, CIBERSORT, and ssGSEA algorithms. According to the TIDE database, a negative correlation was found between RS and immune therapy responsiveness. The GDSC database revealed that 49 drugs were beneficial for the low-risk group and 25 drugs for the high-risk group. Silencing C10orf55 expression in SW900 cells reduced invasiveness and migration potential. In summary, this lncRNA model based on TCGA-LUSC data effectively predicts prognosis and assists clinical decision-making.
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  • 文章类型: Journal Article
    背景:子宫内膜异位症(EMs)是一种未知发病机制的神秘疾病。二硫化物下垂,一种由二硫键应激导致的程序性细胞死亡的新鉴定形式,有机会治疗各种疾病。然而,二硫化物凋亡相关基因(DRGs)在EMs中的潜在作用仍然难以捉摸.本研究旨在深入探索参与EMs的关键二硫化物凋亡基因,并在生物信息学分析的基础上,从二硫键沉积的角度探索新的诊断标志物和候选治疗化合物,机器学习,和动物实验。
    结果:对EMs在位和异位子宫内膜组织关键模块基因和差异表达基因(DEGs)的富集分析表明,EMs与二硫化物凋亡密切相关。然后,我们在在位和异位子宫内膜组织中获得了20和16个与二硫键下垂相关的DEGs,分别。蛋白质-蛋白质相互作用(PPI)网络揭示了基因之间复杂的相互作用,并在在位和异位子宫内膜组织中筛选了9个和10个hub基因,分别。此外,免疫浸润分析揭示了免疫细胞的明显差异,人类白细胞抗原(HLA)基因集,与健康对照相比,在位和异位子宫内膜组织中的免疫检查点。此外,上述hub基因与EMs的免疫微环境密切相关。此外,应用四种机器学习算法筛选在位和异位子宫内膜组织中的特征基因,包括二元逻辑回归(BLR),最小绝对收缩和选择运算符(LASSO),支持向量机递归特征消除(SVM-RFE),和极端梯度提升(XGBoost)。使用十倍交叉验证方法对80%的数据进行了模型训练和超参数调整,并在测试集中进行测试,这些测试通过六个指标(灵敏度,特异性,正预测值,负预测值,准确性,和曲线下的面积)。和七个异位标记基因(ACTB,GYS1,IQGAP1,MYH10,NUBPL,SLC7A11,TLN1)和五个异位特征基因(CAPZB,CD2AP,MYH10,OXSM,PDLIM1)最终基于机器学习进行识别。独立的验证数据集还显示了签名基因的高准确性(IQGAP1,SLC7A11,CD2AP,MYH10,PDLIM1)在预测EM中的作用。此外,我们根据异位标记基因筛选了12种针对EMs的特异性化合物,在EMs小鼠模型的异位病变中进一步验证了维甲酸对标记基因的药理学影响.
    结论:本研究基于生物信息学分析,验证了二硫化物沉积与EMs之间的密切关系,机器学习,和动物实验。对EM中二硫键沉积的生物学机制的进一步研究有望在EM中寻找潜在的诊断生物标志物和革命性的治疗方法方面产生新的进展。
    BACKGROUND: Endometriosis (EMs) is an enigmatic disease of yet-unknown pathogenesis. Disulfidptosis, a novel identified form of programmed cell death resulting from disulfide stress, stands a chance of treating diverse ailments. However, the potential roles of disulfidptosis-related genes (DRGs) in EMs remain elusive. This study aims to thoroughly explore the key disulfidptosis genes involved in EMs, and probe novel diagnostic markers and candidate therapeutic compounds from the aspect of disulfidptosis based on bioinformatics analysis, machine learning, and animal experiments.
    RESULTS: Enrichment analysis on key module genes and differentially expressed genes (DEGs) of eutopic and ectopic endometrial tissues in EMs suggested that EMs was closely related to disulfidptosis. And then, we obtained 20 and 16 disulfidptosis-related DEGs in eutopic and ectopic endometrial tissue, respectively. The protein-protein interaction (PPI) network revealed complex interactions between genes, and screened nine and ten hub genes in eutopic and ectopic endometrial tissue, respectively. Furthermore, immune infiltration analysis uncovered distinct differences in the immunocyte, human leukocyte antigen (HLA) gene set, and immune checkpoints in the eutopic and ectopic endometrial tissues when compared with health control. Besides, the hub genes mentioned above showed a close correlation with the immune microenvironment of EMs. Furthermore, four machine learning algorithms were applied to screen signature genes in eutopic and ectopic endometrial tissue, including the binary logistic regression (BLR), the least absolute shrinkage and selection operator (LASSO), the support vector machine-recursive feature elimination (SVM-RFE), and the extreme gradient boosting (XGBoost). Model training and hyperparameter tuning were implemented on 80% of the data using a ten-fold cross-validation method, and tested in the testing sets which determined the excellent diagnostic performance of these models by six indicators (Sensitivity, Specificity, Positive Predictive Value, Negative Predictive Value, Accuracy, and Area Under Curve). And seven eutopic signature genes (ACTB, GYS1, IQGAP1, MYH10, NUBPL, SLC7A11, TLN1) and five ectopic signature genes (CAPZB, CD2AP, MYH10, OXSM, PDLIM1) were finally identified based on machine learning. The independent validation dataset also showed high accuracy of the signature genes (IQGAP1, SLC7A11, CD2AP, MYH10, PDLIM1) in predicting EMs. Moreover, we screened 12 specific compounds for EMs based on ectopic signature genes and the pharmacological impact of tretinoin on signature genes was further verified in the ectopic lesion in the EMs murine model.
    CONCLUSIONS: This study verified a close association between disulfidptosis and EMs based on bioinformatics analysis, machine learning, and animal experiments. Further investigation on the biological mechanism of disulfidptosis in EMs is anticipated to yield novel advancements for searching for potential diagnostic biomarkers and revolutionary therapeutic approaches in EMs.
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  • 文章类型: Journal Article
    二硫化物下垂,一种新形式的细胞死亡,可能是由与胱氨酸二硫化物积累相关的二硫化物胁迫诱导的,可以促进细胞毒性,导致细胞死亡。然而,在肺腺癌(LUAD)中,直接预后的作用以及二硫下垂相关基因(DRGs)的调节机制尚不清楚.本研究旨在通过多组学分析探讨DRGs在LUAD预后和诊断中的作用。首先,评估了10个基因的拷贝数变异(CNV)和突变.考虑到五个差异表达基因(DEGs)与二硫键沉积有关,本研究开发了一种可用于预测LUAD预后的新型DRG评分.接下来,所生成的受试者工作特征(ROC)和生存曲线表明,该模型在训练队列和验证队列中均具有优异的LUAD预测质量.同时,观察到高DRG组和低DRG组之间的实质性功能差异,和第二间隙有丝分裂(G2M)检查点,E2启动子结合因子(E2F)靶标,高DRG组的骨髓细胞瘤病(MYC)目标活性始终高于低DRG组。此外,T细胞功能障碍评分和肿瘤炎症特征(Merck18)与DRGs呈负相关,而骨髓来源的抑制细胞(MDSCs)与DRGs呈正相关。此外,DRG与大多数免疫检查点呈负相关。同时,低DRG样本从免疫检查点阻断(ICB)中获益更多.DRG与临床特征之间的相关性分析显示,随着DRG评分的增加,恶性程度增加。药物致敏实验结果提示对顺铂的敏感性,长春新碱,多西他赛,和吉西他滨在高DRG组高于低DRG组。模型基因在LUAD中的功能也使用免疫组织化学进行了验证,定量逆转录聚合酶链反应(qRT-PCR),西方印迹,5-乙炔基-2'-脱氧尿苷(EDU),和克隆形成。
    Disulfidptosis, a new form of cell death, may be induced by disulfide stress associated with cystine disulfide buildup, which can promote cell toxicity, leading to cell death. Nevertheless, the role of direct prognosis and the mechanism underlying the regulation of disulfidptosis-related genes (DRGs) in lung adenocarcinoma (LUAD) are still unknown. This study aimed to investigate the role of DRGs in LUAD prognosis and diagnosis through multiomics analysis. First, copy number variations (CNVs) and mutations in the 10 genes were assessed. Considering that five differentially expressed genes (DEGs) were associated with disulfidptosis, a novel DRG score that can be utilized to anticipate LUAD prognosis was developed. Next, the generated receiver operating characteristic (ROC) and survival curves demonstrated that the model had an excellent predictive quality in LUAD in both the training and validation cohorts. Meanwhile, substantial functional disparities between the high DRG group and the low DRG group were observed, and the second gap mitosis (G2M) checkpoint, E2 promoter-binding factor (E2F) targets, and myelocytomatosis (MYC) target activities were consistently higher in the high DRG group than in the low DRG group. Additionally, the T-cell dysfunction score and tumor inflammation signature (Merck18) were negatively correlated with DRGs, whereas myeloid-derived suppressor cells (MDSCs) were positively correlated with DRGs. Moreover, DRGs were negatively linked to most of the immunological checkpoints. Meanwhile, samples of low DRGs benefited more from immune checkpoint blockade (ICB). The correlation analysis between DRGs and clinical characteristics revealed increasing malignancy with increasing DRG scores. Drug sensitization experiment results indicated that sensitivity to cisplatin, vincristine, docetaxel, and gemcitabine was higher in the high DRG group than in the low DRG group. The function of model genes in LUAD was also verified using immunohistochemistry, quantitative reverse transcription-polymerase chain reaction (qRT-PCR), western blotting, 5-ethynyl-2\'-deoxyuridine (EDU), and clonogenic formation.
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  • 文章类型: Journal Article
    二硫键凋亡是一种新认识的调节细胞死亡形式,与癌症进展和预后有关。尽管有这种联系,预后意义,卵巢癌中与双硫凋亡相关的lncRNAs(DRLs)的免疫学特征和治疗反应尚未阐明。
    从UCSCXENA获得卵巢癌和正常样品的lncRNA数据和临床信息。差异表达分析和Pearson分析用于鉴定核心DRLs,其次是LASSO算法。随机生存森林用于构建预后模型。风险评分之间的关系,RNA甲基化,免疫细胞浸润,突变,我们进一步检查了对免疫治疗的反应和药物敏感性分析.此外,进行qRT-PCR实验以验证核心DRL在人卵巢癌细胞和正常卵巢细胞中的表达,并从GEO数据集中获得核心DRL的scRNA-seq数据,在TISCH数据库中可用。
    共获得8个核心DRL,用于构建卵巢癌的预后模型,使用最佳临界值将所有患者分为低风险和高风险组.1年的AUC值,TCGA组的3年和5年OS分别为0.785、0.810和0.863。证明了模型的强大预测能力。该模型显示高风险组患者的总体生存率较低,与低危组相比,TIDE评分较高,TMB水平较低。在高风险和低风险组之间观察到免疫细胞浸润和对治疗药物的反应的变化。此外,我们的研究验证了DRLs与RNA甲基化之间的相关性.此外,进行qRT-PCR实验和单细胞RNA测序数据分析以确认核心DRL在细胞和scRNA-seq水平上的重要性。
    我们构建了一个可靠且新颖的卵巢癌DRLs集群预后模型,为进一步研究这种疾病的管理提供了基础。
    UNASSIGNED: Disulfidptosis is a newly recognized form of regulated cell death that has been linked to cancer progression and prognosis. Despite this association, the prognostic significance, immunological characteristics and treatment response of disulfidptosis-related lncRNAs (DRLs) in ovarian cancer have not yet been elucidated.
    UNASSIGNED: The lncRNA data and clinical information for ovarian cancer and normal samples were obtained from the UCSC XENA. Differential expression analysis and Pearson analysis were utilized to identify core DRLs, followed by LASSO algorithm. Random Survival Forest was used to construct a prognostic model. The relationships between risk scores, RNA methylation, immune cell infiltration, mutation, responses to immunotherapy and drug sensitivity analysis were further examined. Additionally, qRT-PCR experiments were conducted to validate the expression of the core DRLs in human ovarian cancer cells and normal ovarian cells and the scRNA-seq data of the core DRLs were obtained from the GEO dataset, available in the TISCH database.
    UNASSIGNED: A total of 8 core DRLs were obtained to construct a prognostic model for ovarian cancer, categorizing all patients into low-risk and high-risk groups using an optimal cutoff value. The AUC values for 1-year, 3-year and 5-year OS in the TCGA cohort were 0.785, 0.810 and 0.863 respectively, proving a strong predictive capability of the model. The model revealed the high-risk group patients exhibited lower overall survival rates, higher TIDE scores and lower TMB levels compared to the low-risk group. Variations in immune cell infiltration and responses to therapeutic drugs were observed between the high-risk and low-risk groups. Besides, our study verified the correlations between the DRLs and RNA methylation. Additionally, qRT-PCR experiments and single-cell RNA sequencing data analysis were conducted to confirm the significance of the core DRLs at both cellular and scRNA-seq levels.
    UNASSIGNED: We constructed a reliable and novel prognostic model with a DRLs cluster for ovarian cancer, providing a foundation for further researches in the management of this disease.
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  • 文章类型: Journal Article
    二硫键凋亡和铁凋亡是程序性细胞死亡的形式,可能与牙周炎的发病机理有关。我们的研究开发了牙周炎相关的生物标志物,结合了二硫键下垂和铁性下垂,为牙周炎的发病机制提供了新的视角。
    首先,我们从公共数据库中获得了牙周炎数据集,并根据二硫键凋亡和铁凋亡转录组发现了与二硫键凋亡和铁凋亡相关的差异表达转录本.之后,使用三种机器学习方法发现了牙周炎的组织生物标志物转录本。我们还从两个牙周炎微阵列数据集GSE16134和GSE23586产生转录物亚簇。此外,进一步筛选出分类效率最好的三个转录本。使用qRT-PCR验证它们的表达和分类功效。最后,收集32例临床患者牙周临床指标,并分析上述3种转录本与牙周临床指标的相关性。
    我们确定了六种转录本,它们是牙周炎的组织生物标志物,分类最好的前三名成绩单,并勾勒出两种在牙周炎中的表达模式。
    我们的研究发现,二硫键沉积和铁沉积与免疫反应有关,并可能涉及牙周炎的发生。
    UNASSIGNED: Disulfidptosis and ferroptosis are forms of programmed cell death that may be associated with the pathogenesis of periodontitis. Our study developed periodontitis-associated biomarkers combining disulfidptosis and ferroptosis, which provides a new perspective on the pathogenesis of periodontitis.
    UNASSIGNED: Firstly, we obtained the periodontitis dataset from public databases and found disulfidptosis- and ferroptosis-related differentially expressed transcripts based on the disulfidptosis and ferroptosis transcript sets. After that, transcripts that are tissue biomarkers for periodontitis were found using three machine learning methods. We also generated transcript subclusters from two periodontitis microarray datasets: GSE16134 and GSE23586. Furthermore, three transcripts with the best classification efficiency were further screened. Their expression and classification efficacy were validated using qRT-PCR. Finally, periodontal clinical indicators of 32 clinical patients were collected, and the correlation between three transcripts above and periodontal clinical indicators was analyzed.
    UNASSIGNED: We identified six transcripts that are tissue biomarkers for periodontitis, the top three transcripts with the best classification, and delineated two expression patterns in periodontitis.
    UNASSIGNED: Our study found that disulfidptosis and ferroptosis were associated with immune responses and may involve periodontitis genesis.
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  • 文章类型: Journal Article
    弥漫性大B细胞淋巴瘤(DLBCL),具有内在的遗传和表观遗传异质性,在使用当前标准方案治疗的患者中,临床结局显着变化。二硫化物下垂,一种由二硫键应激引发的新型调节性细胞死亡,其特征是由于二硫化物的细胞内积累而导致细胞骨架蛋白和F-肌动蛋白崩溃。我们使用两个公开可用的基因表达数据集研究了DLBCL中二硫凋亡相关基因(DRG)的表达变化。DLBCL(GSE12453)中DRG的初步分析揭示了各种正常B细胞和DLBCL之间基因表达模式的差异。后续分析(GSE31312)确定了与预后结果密切相关的DRGs,揭示了八个特征DRG(CAPZB,DSTN,GYS1,IQGAP1,MYH9,NDUFA11,NDUFS1,OXSM)。基于这些DRG,DLBCL患者分为三组,表明(1)DRGs可以预测预后,和(2)DRGs可以帮助识别新的治疗候选物。这项研究强调了DRGs在DLBCL中各种生物过程中的重要作用。评估个体DRG的风险评分可以更精确地对DLBCL患者的预后和治疗策略进行分层。从而提高临床实践的有效性。
    Diffuse Large B-cell Lymphoma (DLBCL), with its intrinsic genetic and epigenetic heterogeneity, exhibits significantly variable clinical outcomes among patients treated with the current standard regimen. Disulfidptosis, a novel form of regulatory cell death triggered by disulfide stress, is characterized by the collapse of cytoskeleton proteins and F-actin due to intracellular accumulation of disulfides. We investigated the expression variations of disulfidptosis-related genes (DRGs) in DLBCL using two publicly available gene expression datasets. The initial analysis of DRGs in DLBCL (GSE12453) revealed differences in gene expression patterns between various normal B cells and DLBCL. Subsequent analysis (GSE31312) identified DRGs strongly associated with prognostic outcomes, revealing eight characteristic DRGs (CAPZB, DSTN, GYS1, IQGAP1, MYH9, NDUFA11, NDUFS1, OXSM). Based on these DRGs, DLBCL patients were stratified into three groups, indicating that (1) DRGs can predict prognosis, and (2) DRGs can help identify novel therapeutic candidates. This study underscores the significant role of DRGs in various biological processes within DLBCL. Assessing the risk scores of individual DRGs allows for more precise stratification of prognosis and treatment strategies for DLBCL patients, thereby enhancing the effectiveness of clinical practice.
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