LASSO regression

LASSO 回归
  • 文章类型: Journal Article
    目的:颞下颌关节紊乱病(TMD)在大学生中的患病率相对较高。本研究旨在识别大学生TMD的独立危险因素,并建立有效的风险预测模型。
    方法:本研究纳入了长春市四所大学的1122名大学生,吉林省,作为主体。通过在训练队列中使用最小绝对收缩和选择算子(LASSO)回归和机器学习Boruta算法来筛选预测因素。采用多因素logistic回归分析构建TMD风险预测模型。模型的内部验证是通过引导重采样进行的,一个外部验证队列包括在吉林大学口腔医院接受口腔检查的205名大学生。
    结果:大学生TMD患病率为44.30%。模型中包括十个预测因素,包括性别,面部冷刺激,单侧咀嚼,咬坚硬或有弹性的食物,咬紧牙关,磨齿,过度张嘴,错牙合,压力,和焦虑。该模型显示出良好的预测能力,在训练队列中,受试者工作特征曲线下面积(AUC)值为0.853、0.838和0.821,内部验证队列,和外部验证队列,分别。校准曲线表明预测结果与实际结果一致。决策曲线分析(DCA)表明该模型具有较高的临床实用性。
    结论:构建了具有良好预测性能的大学生TMD在线列线图,能有效预测大学生TMD的风险。该模型为大学生TMD的早期识别和治疗提供了有用的工具,帮助临床医生预测每位患者的TMD概率,从而为患者提供更加个性化和准确的治疗决策。
    OBJECTIVE: Temporomandibular disorders (TMDs) have a relatively high prevalence among university students. This study aimed to identify independent risk factors for TMD in university students and develop an effective risk prediction model.
    METHODS: This study included 1,122 university students from four universities in Changchun City, Jilin Province, as subjects. Predictive factors were screened by using the least absolute shrinkage and selection operator (LASSO) regression and the machine learning Boruta algorithm in the training cohort. A multifactorial logistic regression analysis was used to construct a TMD risk prediction model. Internal validation of the model was conducted via bootstrap resampling, and an external validation cohort comprised 205 university students undergoing oral examinations at the Stomatological Hospital of Jilin University.
    RESULTS: The prevalence of TMD among university students was 44.30%. Ten predictive factors were included in the model, comprising gender, facial cold stimulation, unilateral chewing, biting hard or resilient foods, clenching teeth, grinding teeth, excessive mouth opening, malocclusion, stress, and anxiety. The model demonstrated good predictive ability with area under the receiver operating characteristic curve (AUC) values of 0.853, 0.838, and 0.821 in the training cohort, internal validation cohort, and external validation cohort, respectively. The calibration curves demonstrated that the predicted results were consistent with the actual results, and the decision curve analysis (DCA) indicated the model\'s high clinical utility.
    CONCLUSIONS: An online nomogram of TMD in university students with good predictive performance was constructed, which can effectively predict the risk of TMD in university students. The model provides a useful tool for the early identification and treatment of TMDs in university students, helping clinicians to predict the probability of TMDs in each patient, thus providing more personalized and accurate treatment decisions for patients.
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  • 文章类型: Journal Article
    本研究旨在开发子宫切除术后手术部位感染(SSI)的预测工具,并提出预防和控制策略。我们在浙江省某三级妇幼专科医院进行了回顾性分析,重点关注2018年1月至2023年12月因妇科恶性肿瘤或生殖系统良性疾病对药物治疗耐药而接受子宫切除术的患者.使用LASSO回归分析以2018年至2022年的数据作为训练集,确定与子宫切除术后手术部位感染(SSI)相关的危险因素。然后使用独立的危险因素来开发列线图。使用2023年的数据作为验证集对模型进行了验证。使用接受者工作特征曲线下面积(ROC)评估模型性能,而校正曲线用于衡量模型的准确性。此外,通过临床决策曲线分析(DCA)和临床影响曲线分析(CIC)评估临床效用,提供对列线图的实际应用的见解。多因素分析确定了与子宫切除术后SSI发展相关的六个独立危险因素:BMI≥24kg/m2(OR:2.58;95%CI1.14-6.19;P<0.05)。低蛋白血症诊断(OR:4.99;95%CI1.95-13.02;P<0.05),术后抗生素使用≥3天(OR:49.53;95%CI9.73-91.01;P<0.05),既往腹部手术史(OR:7.46;95%CI2.93-20.01;P<0.05),住院时间≥10天(OR:9.67;95%CI2.06-76.46;P<0.05),恶性病理类型(OR:4.62;95%CI1.78~12.76;P<0.05)。使用这些变量构建了列线图模型。ROC和校准曲线在训练集和验证集中均显示出良好的模型校准和辨别。DCA和CIC的分析证实了列线图的临床实用性。子宫切除术后SSI的个性化列线图能够早期识别高危患者,促进及时干预,以降低术后SSI发生率。
    This study aimed to develop a predictive tool for surgical site infections (SSI) following hysterectomy and propose strategies for their prevention and control. We conducted a retrospective analysis at a tertiary maternity and child specialist hospital in Zhejiang Province, focusing on patients who underwent hysterectomy between January 2018 and December 2023 for gynecological malignancies or benign reproductive system diseases resistant to medical treatment. Risk factors associated with surgical site infections (SSI) following hysterectomy were identified using LASSO regression analysis on data from 2018 to 2022 as the training set. Independent risk factors were then used to develop a nomogram. The model was validated using data from 2023 as the validation set. Model performance was assessed using the area under the receiver operating characteristic curve (ROC), while calibration curves were employed to gauge model accuracy. Furthermore, clinical utility was evaluated through clinical decision curve analysis (DCA) and clinical impact curve analysis (CIC), providing insights into the practical application of the nomogram. Multivariate analysis identified six independent risk factors associated with SSI development after hysterectomy: BMI ≥ 24 kg/m2 (OR: 2.58; 95% CI 1.14-6.19; P < 0.05), hypoproteinaemia diagnosis (OR: 4.99; 95% CI 1.95-13.02; P < 0.05), postoperative antibiotic use for ≥ 3 days (OR: 49.53; 95% CI 9.73-91.01; P < 0.05), history of previous abdominal surgery (OR: 7.46; 95% CI 2.93-20.01; P < 0.05), hospital stay ≥ 10 days (OR: 9.67; 95% CI 2.06-76.46; P < 0.05), and malignant pathological type (OR: 4.62; 95% CI 1.78-12.76; P < 0.05). A nomogram model was constructed using these variables. ROC and calibration curves demonstrated good model calibration and discrimination in both training and validation sets. Analysis with DCA and CIC confirmed the clinical utility of the nomogram. Personalized nomogram mapping for SSI after hysterectomy enables early identification of high-risk patients, facilitating timely interventions to reduce SSI incidence post-surgery.
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  • 文章类型: Journal Article
    背景:哮喘,一种普遍的慢性炎症性疾病,是由遗传敏感性和环境暴露之间多方面的相互作用形成的。尽管在破译其病理生理景观方面取得了进展,哮喘复杂的分子基础仍然难以捉摸。焦点越来越转向伴随哮喘的代谢异常,特别是在嘧啶代谢(PyM)域内-核苷酸合成和降解的关键途径。虽然PyM的治疗相关性已经在各种疾病中得到认可,其对哮喘病理的具体贡献尚未得到充分研究.这项研究采用复杂的生物信息学方法来描绘和确认PyM基因(PyMGs)在哮喘中的参与,旨在弥合这一巨大的知识差距。
    方法:采用尖端的生物信息学技术,本研究旨在阐明PyMGs在哮喘中的作用。我们对31个PyMGs进行了详细检查,以评估其差异表达。通过基因集富集分析(GSEA)和基因集变异分析(GSVA),我们探索了与这些基因相关的生物学功能和途径。我们利用Lasso回归和支持向量机递归特征消除(SVM-RFE)来确定关键的枢纽基因,并确定八个PyMGs在区分哮喘方面的诊断准确性。辅以与该疾病临床特征的广泛相关性研究。使用数据集GSE76262和GSE147878进行基因表达的验证。
    结果:我们的分析表明,有11个PyMGs-DHODH,UMPS,NME7,NME1,POLR2B,POLR3B,POLR1C,POLE,ENPP3,RRM2B,TK2-与哮喘显著相关。这些基因在RNA剪接等基本生物过程中起着至关重要的作用。解剖结构维护,以及涉及嘌呤化合物的代谢过程。
    结论:这项研究确定了11个PyMGs是哮喘发病机制的核心,将它们作为这种疾病的潜在生物标志物。我们的发现增强了对哮喘分子机制的理解,并为改善诊断开辟了新的途径。监测,和进展评估。通过提供对非癌症病理的新见解,我们的工作引入了一个新颖的视角,并为该领域的进一步研究奠定了基础。
    BACKGROUND: Asthma, a prevalent chronic inflammatory disorder, is shaped by a multifaceted interplay between genetic susceptibilities and environmental exposures. Despite strides in deciphering its pathophysiological landscape, the intricate molecular underpinnings of asthma remain elusive. The focus has increasingly shifted toward the metabolic aberrations accompanying asthma, particularly within the domain of pyrimidine metabolism (PyM)-a critical pathway in nucleotide synthesis and degradation. While the therapeutic relevance of PyM has been recognized across various diseases, its specific contributions to asthma pathology are yet underexplored. This study employs sophisticated bioinformatics approaches to delineate and confirm the involvement of PyM genes (PyMGs) in asthma, aiming to bridge this significant gap in knowledge.
    METHODS: Employing cutting-edge bioinformatics techniques, this research aimed to elucidate the role of PyMGs in asthma. We conducted a detailed examination of 31 PyMGs to assess their differential expression. Through Gene Set Enrichment Analysis (GSEA) and Gene Set Variation Analysis (GSVA), we explored the biological functions and pathways linked to these genes. We utilized Lasso regression and Support Vector Machine-Recursive Feature Elimination (SVM-RFE) to pinpoint critical hub genes and to ascertain the diagnostic accuracy of eight PyMGs in distinguishing asthma, complemented by an extensive correlation study with the clinical features of the disease. Validation of the gene expressions was performed using datasets GSE76262 and GSE147878.
    RESULTS: Our analyses revealed that eleven PyMGs-DHODH, UMPS, NME7, NME1, POLR2B, POLR3B, POLR1C, POLE, ENPP3, RRM2B, TK2-are significantly associated with asthma. These genes play crucial roles in essential biological processes such as RNA splicing, anatomical structure maintenance, and metabolic processes involving purine compounds.
    CONCLUSIONS: This investigation identifies eleven PyMGs at the core of asthma\'s pathogenesis, establishing them as potential biomarkers for this disease. Our findings enhance the understanding of asthma\'s molecular mechanisms and open new avenues for improving diagnostics, monitoring, and progression evaluation. By providing new insights into non-cancerous pathologies, our work introduces a novel perspective and sets the stage for further studies in this field.
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  • 文章类型: Journal Article
    特发性眼眶炎症,以前称为NSOI(非特异性眼眶炎症),以淋巴组织的多态浸润为特征的谱系障碍,提出了一个复杂和知之甚少的病因。最近的进展揭示了HLF(人乳铁蛋白),提出了它在调节造血和维持固有粘膜免疫中的关键参与。这一启示引起了人们对探索HLF作为NSOI生物标志物的效用的极大兴趣,尽管我们对其生物合成途径和运行机制的理解存在差距。具体地,交叉多组数据集,来自基因表达综合数据库的GSE58331和GSE105149之间的常见差异表达基因和来自ImmPort数据库的免疫相关基因汇编-我们采用了复杂的分析方法,包括Lasso回归和支持向量机递归特征消除,识别HLF。基因集富集分析和基因集变异分析揭示了与HLF相关的基因集内的显著免疫途径富集。HLF表达和免疫过程之间的复杂关系通过CIBERSORT和ESTIMATE算法的使用进一步解剖,评估免疫微环境的特征,强调HLF表达增加和免疫细胞浸润增强之间的显著关联。使用来自GSE58331数据集的数据证实了HLF的表达水平,加强我们发现的有效性。对218个HLF相关差异表达基因的分析显示出统计学上的显着差异。使用LASSO和SVM-RFE算法蒸馏了15个hub基因。与HLF相关的生物功能,如白细胞迁移,骨化,以及免疫过程的负面调节,被照亮了。免疫细胞分析描绘了HLF和各种细胞之间的正相关,包括静息的肥大细胞,激活的NK细胞,浆细胞,和CD8T细胞。相反,与γδT细胞呈负相关,幼稚B细胞,M0和M1巨噬细胞,和激活的肥大细胞。HLF在区分NSOI方面的诊断评估显示出有希望的准确性。我们的调查描绘了HLF与NSOI错综复杂的联系,为诊断和监测这种令人困惑的疾病的进展提供新的生物标志物。
    Idiopathic orbital inflammation, formerly known as NSOI (nonspecific orbital inflammation), is characterized as a spectrum disorder distinguished by the polymorphic infiltration of lymphoid tissue, presenting a complex and poorly understood etiology. Recent advancements have shed light on the HLF (Human lactoferrin), proposing its critical involvement in the regulation of hematopoiesis and the maintenance of innate mucosal immunity. This revelation has generated significant interest in exploring HLF\'s utility as a biomarker for NSOI, despite the existing gaps in our understanding of its biosynthetic pathways and operational mechanisms. Intersecting multi-omic datasets-specifically, common differentially expressed genes between GSE58331 and GSE105149 from the Gene Expression Omnibus and immune-related gene compendiums from the ImmPort database-we employed sophisticated analytical methodologies, including Lasso regression and support vector machine-recursive feature elimination, to identify HLF. Gene set enrichment analysis and gene set variation analysis disclosed significant immune pathway enrichment within gene sets linked to HLF. The intricate relationship between HLF expression and immunological processes was further dissected through the utilization of CIBERSORT and ESTIMATE algorithms, which assess characteristics of the immune microenvironment, highlighting a noteworthy association between increased HLF expression and enhanced immune cell infiltration. The expression levels of HLF were corroborated using data from the GSE58331 dataset, reinforcing the validity of our findings. Analysis of 218 HLF-related differentially expressed genes revealed statistically significant discrepancies. Fifteen hub genes were distilled using LASSO and SVM-RFE algorithms. Biological functions connected with HLF, such as leukocyte migration, ossification, and the negative regulation of immune processes, were illuminated. Immune cell analysis depicted a positive correlation between HLF and various cells, including resting mast cells, activated NK cells, plasma cells, and CD8 T cells. Conversely, a negative association was observed with gamma delta T cells, naive B cells, M0 and M1 macrophages, and activated mast cells. Diagnostic assessments of HLF in distinguishing NSOI showed promising accuracy. Our investigation delineates HLF as intricately associated with NSOI, casting light on novel biomarkers for diagnosis and progression monitoring of this perplexing condition.
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  • 文章类型: Journal Article
    这项研究旨在开发和验证美国18岁以上糖尿病成年人全因死亡风险的预测模型。从1999-2016年的国家健康和营养检查调查(NHANES)中招募了7918名糖尿病患者,中位随访96个月。主要研究终点是全因死亡率。全因死亡率的预测因素包括年龄,单核细胞,红细胞,肌酐,营养风险指数(NRI)中性粒细胞/淋巴细胞(NLR),吸烟习惯,酒精消费,心血管疾病(CVD),尿白蛋白排泄率(UAE),和胰岛素的使用。训练集和验证集的c指数为0.790(95%CI0.779-0.801,P<0.001)和0.792(95%CI:0.776-0.808,P<0.001),分别。在随访3年、5年和10年时,训练集和验证集的ROC曲线下面积分别为0.815、0.814、0.827和0.812、0.818和0.829,分别。校准图和DCA曲线都表现良好。该模型为美国糖尿病患者的死亡风险提供了准确的预测,其得分可以有效地确定门诊患者的死亡风险,为临床决策和预测患者预后提供指导。
    This study aimed to develop and validate a predictive model of all-cause mortality risk in American adults aged ≥ 18 years with diabetes. 7918 participants with diabetes were enrolled from the National Health and Nutrition Examination Survey (NHANES) 1999-2016 and followed for a median of 96 months. The primary study endpoint was the all-cause mortality. Predictors of all-cause mortality included age, Monocytes, Erythrocyte, creatinine, Nutrition Risk Index (NRI), neutrophils/lymphocytes (NLR), smoking habits, alcohol consumption, cardiovascular disease (CVD), urinary albumin excretion rate (UAE), and insulin use. The c-index was 0.790 (95% CI 0.779-0.801, P < 0.001) and 0.792 (95% CI: 0.776-0.808, P < 0.001) for the training and validation sets, respectively. The area under the ROC curve was 0.815, 0.814, 0.827 and 0.812, 0.818 and 0.829 for the training and validation sets at 3, 5, and 10 years of follow-up, respectively. Both calibration plots and DCA curves performed well. The model provides accurate predictions of the risk of death for American persons with diabetes and its scores can effectively determine the risk of death in outpatients, providing guidance for clinical decision-making and predicting prognosis for patients.
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  • 文章类型: Journal Article
    简介:肺癌仍然是全球重大的健康负担,非小细胞肺癌(NSCLC)是主要亚型。尽管在治疗方面取得了进展,晚期非小细胞肺癌患者的预后仍不能令人满意,强调了精确预后评估模型的必要性。本研究旨在开发和验证专门为诊断为NSCLC的患者定制的生存预测模型。
    方法:总共523名患者被随机分为训练数据集(n=313)和验证数据集(n=210)。我们使用三种分析方法进行初始变量选择:单变量Cox回归,LASSO回归,和随机生存森林(RSF)分析。然后对每种方法选择的变量进行多变量Cox回归以构建最终的预测模型。基于在验证数据集中观察到的最高引导C指数来选择最佳模型。此外,使用时间相关的接收器工作特性(Time-ROC)曲线评估模型的预测性能,校准图,和决策曲线分析(DCA)。
    结果:LASSO回归模型,其中包括N阶段,中性粒细胞-淋巴细胞比率(NLR),D-二聚体,神经元特异性烯醇化酶(NSE),鳞状细胞癌抗原(SCC),驾驶员变更,和一线治疗,在验证数据集中实现了0.668的引导C指数(95%CI:0.626-0.722),在测试的三个模型中最高。该模型在验证数据集中表现出良好的区分度,1年生存率的ROC曲线下面积(AUC)值为0.707(95%CI:0.633-0.781),2年生存率0.691(95%CI:0.616-0.765),和0.696(95%CI:0.611-0.781)的3年生存预测,分别。校准图表明预测和观察到的存活概率之间具有良好的一致性。决策曲线分析表明,该模型在一系列决策阈值下提供了临床益处。
    结论:LASSO回归模型在验证数据集中表现出稳健的性能,有效预测晚期NSCLC患者的生存结局。该模型可以帮助临床医生做出更明智的治疗决策,并为患者风险分层和个性化管理提供有价值的工具。
    Introduction: Lung cancer remains a significant global health burden, with non-small cell lung cancer (NSCLC) being the predominant subtype. Despite advancements in treatment, the prognosis for patients with advanced NSCLC remains unsatisfactory, underscoring the imperative for precise prognostic assessment models. This study aimed to develop and validate a survival prediction model specifically tailored for patients diagnosed with NSCLC.
    METHODS: A total of 523 patients were randomly divided into a training dataset (n=313) and a validation dataset (n=210). We conducted initial variable selection using three analytical methods: univariate Cox regression, LASSO regression, and random survival forest (RSF) analysis. Multivariate Cox regression was then performed on the variables selected by each method to construct the final predictive models. The optimal model was selected based on the highest bootstrap C-index observed in the validation dataset. Additionally, the predictive performance of the model was evaluated using time-dependent receiver operating characteristic (Time-ROC) curves, calibration plots, and decision curve analysis (DCA).
    RESULTS: The LASSO regression model, which included N stage, neutrophil-lymphocyte ratio (NLR), D-dimer, neuron-specific enolase (NSE), squamous cell carcinoma antigen (SCC), driver alterations, and first-line treatment, achieved a bootstrap C-index of 0.668 (95% CI: 0.626-0.722) in the validation dataset, the highest among the three models tested. The model demonstrated good discrimination in the validation dataset, with area under the ROC curve (AUC) values of 0.707 (95% CI: 0.633-0.781) for 1-year survival, 0.691 (95% CI: 0.616-0.765) for 2-year survival, and 0.696 (95% CI: 0.611-0.781) for 3-year survival predictions, respectively. Calibration plots indicated good agreement between predicted and observed survival probabilities. Decision curve analysis demonstrated that the model provides clinical benefit at a range of decision thresholds.
    CONCLUSIONS: The LASSO regression model exhibited robust performance in the validation dataset, predicting survival outcomes for patients with advanced NSCLC effectively. This model can assist clinicians in making more informed treatment decisions and provide a valuable tool for patient risk stratification and personalized management.
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  • 文章类型: Journal Article
    相当比例的高血压患者可能经历腔隙性脑梗死。因此,早期识别高血压患者腔隙性脑梗死的风险尤为重要。本研究旨在开发和验证预测高血压患者腔隙性脑梗死的简明列线图。
    回顾性分析皖南医学院第二附属医院2021年1月至2022年12月314例准确高血压病史患者的临床资料。将所有患者随机分配到7:3的训练集(n=220)和验证集(n=94)。使用头颅CT或MRI证实患者腔隙性脑梗死的诊断。采用最小绝对收缩和选择算子(LASSO)回归和多因素logistic回归分析确定腔隙性脑梗死的独立危险因素。列线图是根据独立的危险因素建立的。列线图的歧视,校准,通过受试者工作特征(ROC)曲线评估临床有用性,校正曲线,和决策曲线分析(DCA)分析,分别。
    在训练集和验证集中,腔隙性脑梗死的发生率分别为34.50%和33.00%,分别。五个独立的预测因子由列线图组成,包括年龄(OR=1.142,95%CI:1.089-1.198,P<0.001),糖尿病(OR=3.058,95%CI:1.396-6.697,P=0.005),心房颤动(OR=3.103,95%CI:1.328-7.250,P=0.009),高血压病程(OR=1.130,95%CI:1.045-1.222,P=0.002),低密度脂蛋白(OR=2.147,95%CI:1.250~3.688,P=0.006)。在训练集中,曲线下面积(AUC)的判别为0.847(95%CI:0.789-0.905),在验证集中略有增加至0.907(95%CI:0.838-0.976)。校准曲线显示腔隙性脑梗死的预测概率和实际概率之间的高度一致性。此外,DCA分析显示,在两组中,列线图的阈值概率范围的总体净获益均较高.
    年龄,糖尿病,心房颤动,高血压的持续时间,低密度脂蛋白是高血压患者腔隙性脑梗死的重要预测因子。根据临床数据构建列线图,这是临床医生评估高血压患者腔隙性脑梗死风险的有用可视化工具.
    UNASSIGNED: A considerable proportion of hypertensive patients may experience lacunar infarction. Therefore, early identification of the risk for lacunar infarction in hypertensive patients is particularly important. This study aimed to develop and validate a concise nomogram for predicting lacunar infarction in hypertensive patients.
    UNASSIGNED: Retrospectively analyzed the clinical data of 314 patients with accurate history of hypertension in the Second Affiliated Hospital of Wannan Medical College from January 2021 to December 2022. All the patients were randomly assigned to the training set (n=220) and the validation set (n=94) with 7:3. The diagnosis of lacunar infarction in patients was confirmed using cranial CT or MRI. The independent risk factors of lacunar infarction were determined by Least absolute shrinkage and selection operator (LASSO) regression and multivariable logistic regression analysis. The nomogram was built based on the independent risk factors. The nomogram\'s discrimination, calibration, and clinical usefulness were evaluated by receiver operating characteristics (ROC) curve, calibration curve, and decision curve analysis (DCA) analysis, respectively.
    UNASSIGNED: The incidence of lacunar infarction was 34.50% and 33.00% in the training and validation sets, respectively. Five independent predictors were made up of the nomogram, including age (OR=1.142, 95% CI: 1.089-1.198, P<0.001), diabetes mellitus (OR=3.058, 95% CI: 1.396-6.697, P=0.005), atrial fibrillation (OR=3.103, 95% CI: 1.328-7.250, P=0.009), duration of hypertension (OR=1.130, 95% CI: 1.045-1.222, P=0.002), and low-density lipoprotein (OR=2.147, 95% CI: 1.250-3.688, P=0.006). The discrimination with area under the curve (AUC) was 0.847 (95% CI: 0.789-0.905) in the training set and was a slight increase to 0.907 (95% CI: 0.838-0.976) in the validation set. The calibration curve showed high coherence between the predicted and actual probability of lacunar infarction. Moreover, the DCA analysis indicated that the nomogram had a higher overall net benefit of the threshold probability range in both two sets.
    UNASSIGNED: Age, diabetes mellitus, atrial fibrillation, duration of hypertension, and low-density lipoprotein were significant predictors of lacunar infarction in hypertensive patients. The nomogram based on the clinical data was constructed, which was a useful visualized tool for clinicians to assess the risk of the lacunar infarction in hypertensive patients.
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  • 文章类型: Journal Article
    本研究旨在表征骨关节炎(OA)中具有免疫调节特征的PANoptosis相关基因,并探讨其潜在的诊断和治疗意义。从基因表达综合(GEO)数据库获得来自OA患者和健康对照的基因表达数据。进行差异表达分析和功能富集分析以鉴定与OA发病机制相关的PANoptosis相关基因(PRG)。使用LASSO回归建立了诊断模型,使用受试者工作特征曲线(ROC)分析评估关键PRG的诊断价值。还检查了免疫细胞和潜在的小分子试剂的浸润。共鉴定出39个差异表达的PANoptosis相关基因(DE-PRGs),功能富集分析揭示了它们参与炎症反应调节和免疫调节途径。七个关键的PRG,包括CDKN1A,选择EZH2、MEG3、NR4A1、PIK3R2、S100A8和SYVN1进行诊断模型构建,在训练和验证数据集中都展示了高预测性能。探索关键PRGs与免疫细胞浸润之间的相关性。此外,分子对接分析确定APHA-化合物-8为靶向关键PRG的潜在治疗剂。本研究确定并分析了OA中的PRGs,揭示它们在免疫调节中的作用。使用七个关键PRG来构建具有高预测性能的诊断模型。阐明了已鉴定的PRGs与免疫细胞浸润的相关性,APHA-化合物-8被强调为潜在的治疗剂。这些发现为OA提供了新的诊断标志物和治疗靶点,保证进一步的体内验证和临床应用的探索。
    This study aimed to characterize PANoptosis-related genes with immunoregulatory features in osteoarthritis (OA) and investigate their potential diagnostic and therapeutic implications. Gene expression data from OA patients and healthy controls were obtained from the Gene Expression Omnibus (GEO) database. Differential expression analysis and functional enrichment analysis were conducted to identify PANoptosis-related genes (PRGs) associated with OA pathogenesis. A diagnostic model was developed using LASSO regression, and the diagnostic value of key PRGs was evaluated using Receiver Operating Characteristic Curve (ROC) analysis. The infiltration of immune cells and potential small molecule agents were also examined. A total of 39 differentially expressed PANoptosis-related genes (DE-PRGs) were identified, with functional enrichment analysis revealing their involvement in inflammatory response regulation and immune modulation pathways. Seven key PRGs, including CDKN1A, EZH2, MEG3, NR4A1, PIK3R2, S100A8, and SYVN1, were selected for diagnostic model construction, demonstrating high predictive performance in both training and validation datasets. The correlation between key PRGs and immune cell infiltration was explored. Additionally, molecular docking analysis identified APHA-compound-8 as a potential therapeutic agent targeting key PRGs. This study identified and analyzed PRGs in OA, uncovering their roles in immune regulation. Seven key PRGs were used to construct a diagnostic model with high predictive performance. The identified PRGs\' correlation with immune cell infiltration was elucidated, and APHA-compound-8 was highlighted as a potential therapeutic agent. These findings offer novel diagnostic markers and therapeutic targets for OA, warranting further in vivo validation and exploration of clinical applications.
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  • 文章类型: Journal Article
    背景:长链非编码RNA(lncRNA)和RNA的N6-甲基腺苷(m6A)修饰在肿瘤发生和癌症进展中起关键作用。然而,关于m6A相关lncRNAs及其相应m6A调节因子在前列腺癌(PCa)中的表达模式的知识有限.这项研究旨在描绘m6A相关lncRNAs的景观,建立一个预测模型,并鉴定PCa中预后lncRNAs的关键m6A调节因子。
    方法:从癌症基因组图谱(TCGA)数据库下载PCa患者的临床和转录组数据。随后通过Pearson相关性和单变量Cox回归分析鉴定了与m6A相关的lncRNAs。通过共识聚类分析将预后lncRNAs分为两组,并使用lncRNAs的最小绝对收缩和选择算子(LASSO)回归分析构建风险特征模型。这个模型是用生存率来评估的,临床病理,和免疫学分析。此外,基于构建的lncRNA-m6A调控网络和RT-qPCR结果,RBM15被鉴定为m6A相关lncRNAs的关键调节因子。通过生物信息学分析和生物学实验,探讨RBM15在PCa中的生物学作用。
    结果:在PCa患者中鉴定出34个预后m6A相关lncRNAs,并将其分类为两个具有不同表达模式和生存结果的簇。选择7个m6AlncRNAs(AC105345.1,AL354989.1,AC138028.4,AC022211.1,AC020558.2,AC004076.2和LINC02666)来构建具有对总生存的稳健预测能力的风险特征,并且与PCa患者的临床病理特征和免疫微环境相关。其中,LINC02666和AC022211.1受RBM15调控。此外,RBM15表达与PCa进展相关,生存,和免疫反应。RBM15表达升高的患者对药物AMG-232更敏感。此外,沉默RBM15可降低PCa细胞的活力,促进细胞凋亡。
    结论:RBM15参与风险特征中预后lncRNAs的调节,并且对PCa具有强大的预测能力,使其成为PCa中一个有前途的生物标志物。
    BACKGROUND: Long noncoding RNAs (lncRNAs) and N6-methyladenosine (m6A) modification of RNA play pivotal roles in tumorigenesis and cancer progression. However, knowledge regarding the expression patterns of m6A-related lncRNAs and their corresponding m6A regulators in prostate cancer (PCa) is limited. This study aimed to delineate the landscape of m6A-related lncRNAs, develop a predictive model, and identify the critical m6A regulators of prognostic lncRNAs in PCa.
    METHODS: Clinical and transcriptome data of PCa patients were downloaded from The Cancer Genome Atlas (TCGA) database. Prognostic m6A-related lncRNAs were subsequently identified through Pearson correlation and univariate Cox regression analyses. The prognostic lncRNAs were clustered into two groups by consensus clustering analysis, and a risk signature model was constructed using least absolute shrinkage and selection operator (LASSO) regression analysis of the lncRNAs. This model was evaluated using survival, clinicopathological, and immunological analyses. Furthermore, based on the constructed lncRNA-m6A regulatory network and RT-qPCR results, RBM15 was identified as a critical regulator of m6A-related lncRNAs. The biological roles of RBM15 in PCa were explored through bioinformatics analysis and biological experiments.
    RESULTS: Thirty-four prognostic m6A-related lncRNAs were identified and categorized into two clusters with different expression patterns and survival outcomes in PCa patients. Seven m6A lncRNAs (AC105345.1, AL354989.1, AC138028.4, AC022211.1, AC020558.2, AC004076.2, and LINC02666) were selected to construct a risk signature with robust predictive ability for overall survival and were correlated with clinicopathological characteristics and the immune microenvironment of PCa patients. Among them, LINC02666 and AC022211.1 were regulated by RBM15. In addition, RBM15 expression correlated with PCa progression, survival, and the immune response. Patients with elevated RBM15 expression were more susceptible to the drug AMG-232. Moreover, silencing RBM15 decreased the viability of PCa cells and promoted apoptosis.
    CONCLUSIONS: RBM15 is involved in the regulation of prognostic lncRNAs in the risk signature and has a robust predictive ability for PCa, making it a promising biomarker in PCa.
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  • 文章类型: Journal Article
    背景:PDAC,也被称为胰腺导管腺癌,由于非特异性症状和明显缺乏及时诊断的可靠生物标志物,通常在晚期诊断。Ferroptosis,近年来发现的一种新的非凋亡细胞死亡模式,与PDAC的进展和免疫系统的逃避密切相关。本研究的目的是发现一种与铁凋亡相关的新型ceRNA生物标志物,并研究其在PDAC中的可能分子机制和治疗潜力。
    方法:基于FerrDb和TCGA数据库,使用R生存包筛选与PDAC预后相关的铁死亡相关mRNA.通过miRTarBase鉴定铁凋亡相关的ceRNA网络,miRNet,和starBase,并使用Cytoscape可视化。LASSO回归分析用于建立与ceRNA相关的风险模型。此外,我们采用ssGSEA算法研究了ceRNA轴与PDAC中免疫细胞浸润之间的相关性。使用Spearman相关性分析来研究ceRNA网络与PDAC中免疫检查点基因表达水平之间的关联。使用R包oncoPredict和癌症药物敏感性基因组学(GDSC)资料库对具有高风险评分的PAAD患者的潜在药物进行预测。使用qRT-PCR测定临床样本和PDAC细胞系中LINC02535的表达水平。CCK-8,集落形成,EdU,伤口愈合,和transwell测定进行评估减少LINC02535对生长的影响,迁移,以及PDAC细胞系BxPC3和PANC1的侵袭。
    结果:我们首次发现了一个新的LINC02535/miR-30c-5p/EIF2S1轴与铁性凋亡相关,并创建了预测总生存期的预后列线图。同时,与铁凋亡相关的LINC02535/miR-30c-5p/EIF2S1轴的风险评分与PDAC中的免疫亚型相关.高免疫浸润亚型表现出升高的ceRNA风险评分和EIF2S1表达。相关性分析显示,ceRNA风险评分与四种免疫细胞呈正相关,即活化的CD4T细胞,记忆B细胞,中性粒细胞,和2型辅助T细胞,以及四个免疫检查点基因,即CD274、HAVCR2、PDCD1LG2和TIGIT。药物敏感性分析表明,与具有低风险评分的个体相比,具有高风险评分的个体可能对靶向MEK1/2的抑制剂表现出更高的敏感性。在我们的验证实验中,观察到LINC02535的表达在PDAC组织和细胞系中均增加。此外,LINC02535的抑制导致增殖减少,迁移,和PDAC细胞的侵袭。挽救实验表明,LINC02535通过上调EIF2S1表达促进PDAC细胞生长和转移。
    结论:总结一下,我们为PDAC患者建立了一个新的铁凋亡相关LINC02535/miR-30c-5p/EIF2S1ceRNA网络.对该网络功能的分析为临床决策和精准医学的发展提供了潜在的见解。
    BACKGROUND: PDAC, also known as pancreatic ductal adenocarcinoma, is often diagnosed at a late stage due to nonspecific symptoms and a distinct lack of reliable biomarkers for timely diagnosis. Ferroptosis, a novel non-apoptotic cell death mode discovered in recent years, is strongly linked to the progression of PDAC and the evasion of the immune system. The objective of this study is to discover a novel ceRNA biomarker associated with ferroptosis and investigate its possible molecular mechanisms and therapeutic potential in PDAC.
    METHODS: Based on the FerrDb and TCGA databases, the R survival package was used to screen for ferroptosis-related mRNAs associated with PDAC prognosis. The ferroptosis-related ceRNA network was identified by miRTarBase, miRNet, and starBase and visualized using Cytoscape. The LASSO regression analysis was used to build a risk model associated with ceRNA. Additionally, we investigated the correlation between the ceRNA axis and the infiltration of immune cells in PDAC by employing the ssGSEA algorithm. Spearman correlation analysis was used to investigate the association between the ceRNA network and the expression levels of immune checkpoint genes in PDAC. The prediction of potential medications for PAAD patients with high risk scores was conducted using the R package oncoPredict and the Genomics of Drug Sensitivity in Cancer (GDSC) repository. Expression levels of LINC02535 in clinical specimens and PDAC cell lines were determined using qRT-PCR. CCK-8, colony formation, EdU, wound healing, and transwell assays were performed to assess the impact of reducing LINC02535 on the growth, migration, and invasion of PDAC cell lines BxPC3 and PANC1.
    RESULTS: We first discovered a new LINC02535/miR-30c-5p/EIF2S1 axis associated with ferroptosis and created a prognostic nomogram for predicting overall survival. Meanwhile, the risk scores of the LINC02535/miR-30c-5p/EIF2S1 axis associated with ferroptosis were linked to immune subtypes in PDAC. The high immune infiltration subtype exhibited elevated ceRNA risk scores and EIF2S1 expression. The correlation analysis revealed a positive correlation between ceRNA risk scores and four immune cells, namely Activated CD4 T cell, Memory B cell, Neutrophil, and Type 2 T helper cell, as well as four immune checkpoint genes, namely CD274, HAVCR2, PDCD1LG2, and TIGIT. The analysis of drug sensitivity indicated that individuals with a high-risk score may exhibit greater sensitivity to inhibitors targeting MEK1/2 compared to those with a low-risk score. In our validation experiments, it was observed that the expression of LINC02535 was increased in both PDAC tissues and cell lines. Additionally, the inhibition of LINC02535 resulted in decreased proliferation, migration, and invasion of PDAC cells. Rescue experiments demonstrated that LINC02535 promoted PDAC cell growth and metastasis by upregulating EIF2S1 expression.
    CONCLUSIONS: To summarize, a novel ferroptosis-associated LINC02535/miR-30c-5p/EIF2S1 ceRNA network for PDAC patients was established. The analysis of this network\'s functionality offers potential insights for clinical decision-making and the advancement of precision medicine.
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