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Subgroup identification using individual participant data from multiple trials: An application in low back pain. 使用来自多个试验的个体参与者数据进行亚组识别:腰痛的应用。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-09-01 Epub Date: 2025-06-18 DOI: 10.1017/rsm.2025.10010
Cynthia Huber, Tim Friede

Model-based recursive partitioning (MOB) and its extension, metaMOB, are tools for identifying subgroups with differential treatment effects. When pooling data from various trials the metaMOB approach uses random effects to model the heterogeneity of treatment effects. In situations where interventions offer only small overall benefits and require extensive, costly trials with a large participant enrollment, leveraging individual-participant data (IPD) from multiple trials can help identify individuals who are most likely to benefit from the intervention. We explore the application of MOB and metaMOB in the context of non-specific low back pain treatment, using synthetic data based on a subset of the individual participant data meta-analysis by Patel et al. 1 Our study underscores the need to explore heterogeneity in intercepts and treatment effects to identify subgroups with differential treatment effects in IPD meta-analyses.

基于模型的递归划分(MOB)及其扩展metaMOB是用于识别具有不同处理效果的子组的工具。当汇集来自不同试验的数据时,metaMOB方法使用随机效应来模拟治疗效果的异质性。在干预措施只能提供很小的整体效益,并且需要大量参与者参与的广泛、昂贵的试验的情况下,利用来自多个试验的个体参与者数据(IPD)可以帮助确定最有可能从干预中受益的个体。我们探索了MOB和metaMOB在非特异性腰痛治疗背景下的应用,使用基于Patel等人的个体参与者数据荟萃分析的合成数据1。我们的研究强调需要探索阻断和治疗效果的异质性,以确定IPD荟萃分析中治疗效果差异的亚组。
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引用次数: 0
Hierarchical imputation of categorical variables in the presence of systematically and sporadically missing data. 在存在系统和零星缺失数据的情况下,分类变量的分层代入。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-09-01 Epub Date: 2025-06-10 DOI: 10.1017/rsm.2025.10017
Shahab Jolani

Modern quantitative evidence synthesis methods often combine patient-level data from different sources, known as individual participants data (IPD) sets. A specific challenge in meta-analysis of IPD sets is the presence of systematically missing data, when certain variables are not measured in some studies, and sporadically missing data, when measurements of certain variables are incomplete across different studies. Multiple imputation (MI) is among the better approaches to deal with missing data. However, MI of hierarchical data, such as IPD meta-analysis, requires advanced imputation routines that preserve the hierarchical data structure and accommodate the presence of both systematically and sporadically missing data. We have recently developed a new class of hierarchical imputation methods within the MICE framework tailored for continuous variables. This article discusses the extensions of this methodology to categorical variables, accommodating the simultaneous presence of systematically and sporadically missing data in nested designs with arbitrary missing data patterns. To address the challenge of the categorical nature of the data, we propose an accept-reject algorithm during the imputation process. Following theoretical discussions, we evaluate the performance of the new methodology through simulation studies and demonstrate its application using an IPD set from patients with kidney disease.

现代定量证据合成方法通常结合来自不同来源的患者水平数据,称为个体参与者数据(IPD)集。IPD集合荟萃分析的一个具体挑战是,当某些研究没有测量某些变量时,存在系统缺失的数据;当不同研究中对某些变量的测量不完整时,存在零星缺失的数据。多重插值(MI)是处理缺失数据的较好方法之一。然而,分层数据的MI,如IPD荟萃分析,需要高级的imputation例程来保留分层数据结构,并适应系统和零星缺失数据的存在。我们最近在MICE框架内开发了一种新的针对连续变量的分层imputation方法。本文讨论了将该方法扩展到分类变量,以适应在具有任意丢失数据模式的嵌套设计中系统地和零星地丢失数据的同时存在。为了解决数据的分类性质的挑战,我们提出了一种接受-拒绝算法在imputation过程中。在理论讨论之后,我们通过模拟研究评估了新方法的性能,并使用肾脏疾病患者的IPD集演示了其应用。
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引用次数: 0
Methodology for mapping reviews, evidence maps, and gap maps. 评价制图、证据图和差距图的方法学。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-09-01 Epub Date: 2025-06-16 DOI: 10.1017/rsm.2025.25
Hanan Khalil, Vivian Welch, Matthew Grainger, Fiona Campbell

Mapping reviews are valuable tools for synthesizing and visualizing research evidence, providing a comprehensive overview of studies within a specific field. Their visual approach enhances accessibility, enabling researchers, policymakers, and practitioners to efficiently identify key findings, trends, and knowledge gaps. These reviews are particularly significant in guiding future research, informing funding decisions, and shaping evidence-based policymaking. In environmental science-similar to health and social sciences-mapping reviews play a crucial role in identifying effective conservation strategies, tracking interventions, and supporting targeted programs.Unlike systematic reviews, which assess intervention effectiveness, mapping reviews focus on broad research questions, aiming to chart the existing evidence on a given topic. They use structured methodologies to identify patterns, gaps, and trends, often employing visual tools to enhance data accessibility. A well-defined scope, guided by inclusion and exclusion criteria, ensures a transparent study selection process. Comprehensive search strategies, often spanning multiple databases, maximize evidence capture. Effective screening, combining automated and manual processes, ensures relevance, while data extraction emphasizes high-level categories such as study design and population demographics. Advanced software tools, including EPPI-Reviewer and MindMeister, support data extraction and visualization, with evidence gap maps highlighting robust areas and research voids.Despite their advantages, mapping reviews present challenges. The categorization and coding of studies can introduce subjective biases, and the process demands substantial resources. Automation and artificial intelligence offer promising solutions, improving efficiency while addressing integration and multilingual limitations. As methodological advancements continue, interdisciplinary collaboration will be essential to fully realize the potential of mapping reviews across scientific disciplines.

地图评论是合成和可视化研究证据的宝贵工具,为特定领域的研究提供了全面的概述。他们的可视化方法增强了可访问性,使研究人员、政策制定者和从业者能够有效地识别关键发现、趋势和知识差距。这些审查在指导未来的研究、为资助决策提供信息和形成基于证据的政策制定方面尤其重要。在环境科学中——类似于健康和社会科学——制图审查在确定有效的保护策略、跟踪干预措施和支持有针对性的项目方面起着至关重要的作用。与评估干预有效性的系统评价不同,地图评价侧重于广泛的研究问题,旨在将给定主题的现有证据绘制成图表。他们使用结构化的方法来识别模式、差距和趋势,通常使用可视化工具来增强数据的可访问性。明确定义的范围,以纳入和排除标准为指导,确保透明的研究选择过程。综合搜索策略,通常跨越多个数据库,最大限度地获取证据。结合自动化和人工流程的有效筛选确保了相关性,而数据提取则强调研究设计和人口统计等高级类别。先进的软件工具,包括EPPI-Reviewer和MindMeister,支持数据提取和可视化,证据差距图突出了强大的领域和研究空白。尽管有其优势,但地图审查也带来了挑战。研究的分类和编码可能会引入主观偏见,这一过程需要大量的资源。自动化和人工智能提供了有前途的解决方案,在解决集成和多语言限制的同时提高了效率。随着方法学的不断进步,跨学科合作对于充分实现跨科学学科绘制评论的潜力至关重要。
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引用次数: 0
Continuity corrections with Mantel-Haenszel estimators in Cochrane reviews. Cochrane综述中使用Mantel-Haenszel估计量进行连续性校正。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-09-01 Epub Date: 2025-06-06 DOI: 10.1017/rsm.2025.10012
A E Ades, Deborah M Caldwell, Sumayya Anwer, Sofia Dias
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引用次数: 0
Tipping point analysis in network meta-analysis. 网络元分析中的引爆点分析。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-09-01 Epub Date: 2025-06-16 DOI: 10.1017/rsm.2025.24
Zheng Wang, Thomas A Murray, Wenshan Han, Lifeng Lin, Lianne K Siegel, Haitao Chu

Network meta-analysis (NMA) enables simultaneous assessment of multiple treatments by combining both direct and indirect evidence. While NMAs are increasingly important in healthcare decision-making, challenges remain due to limited direct comparisons between treatments. This data sparsity complicates the accurate estimation of correlations among treatments in arm-based NMA (AB-NMA). To address these challenges, we introduce a novel sensitivity analysis tool tailored for AB-NMA. This study pioneers a tipping point analysis within a Bayesian framework, specifically targeting correlation parameters to assess their influence on the robustness of conclusions about relative treatment effects. The analysis explores changes in the conclusion based on whether the 95% credible interval includes the null value (referred to as the interval conclusion) and the magnitude of point estimates. Applying this approach to multiple NMA datasets, including 112 treatment pairs, we identified tipping points in 13 pairs (11.6%) for interval conclusion change and in 29 pairs (25.9%) for magnitude change with a threshold at 15%. These findings underscore potential commonality in tipping points and emphasize the importance of our proposed analysis, especially in networks with sparse direct comparisons or wide credible intervals for correlation estimates. A case study provides a visual illustration and interpretation of the tipping point analysis. We recommend integrating this tipping point analysis as a standard practice in AB-NMA.

网络荟萃分析(NMA)通过结合直接和间接证据来同时评估多种治疗方法。虽然nma在医疗保健决策中越来越重要,但由于治疗之间的直接比较有限,挑战仍然存在。这种数据稀疏性使得对臂基NMA (AB-NMA)治疗间相关性的准确估计变得复杂。为了解决这些挑战,我们引入了一种针对AB-NMA量身定制的新型灵敏度分析工具。本研究开创了贝叶斯框架内的临界点分析,特别针对相关参数来评估它们对相对治疗效果结论的稳健性的影响。分析根据95%可信区间是否包含零值(称为区间结论)和点估计的大小来探讨结论的变化。将该方法应用于多个NMA数据集,包括112对治疗对,我们在13对(11.6%)中确定了区间结论变化的临界点,在29对(25.9%)中确定了阈值为15%的幅度变化临界点。这些发现强调了引爆点的潜在共性,并强调了我们提出的分析的重要性,特别是在具有稀疏的直接比较或广泛可信区间的相关估计的网络中。案例研究提供了对临界点分析的可视化说明和解释。我们建议将这种临界点分析作为AB-NMA的标准实践。
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引用次数: 0
A comparison of combined p-value functions for meta-analysis. meta分析中组合p值函数的比较。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-09-01 Epub Date: 2025-06-18 DOI: 10.1017/rsm.2025.26
Leonhard Held, Felix Hofmann, Samuel Pawel

P-value functions are modern statistical tools that unify effect estimation and hypothesis testing and can provide alternative point and interval estimates compared to standard meta-analysis methods, using any of the many p-value combination procedures available (Xie et al., 2011, JASA). We provide a systematic comparison of different combination procedures, both from a theoretical perspective and through simulation. We show that many prominent p-value combination methods (e.g. Fisher's method) are not invariant to the orientation of the underlying one-sided p-values. Only Edgington's method, a lesser-known combination method based on the sum of p-values, is orientation-invariant and still provides confidence intervals not restricted to be symmetric around the point estimate. Adjustments for heterogeneity can also be made and results from a simulation study indicate that Edgington's method can compete with more standard meta-analytic methods.

p值函数是统一效应估计和假设检验的现代统计工具,与标准的荟萃分析方法相比,可以使用许多p值组合程序中的任何一种,提供替代的点和区间估计(Xie et al., 2011, JASA)。我们从理论和仿真两方面对不同的组合过程进行了系统的比较。我们证明了许多著名的p值组合方法(例如Fisher的方法)对潜在的单侧p值的方向不是不变的。只有Edgington的方法,一种鲜为人知的基于p值和的组合方法,是方向不变的,并且仍然提供不限于围绕点估计对称的置信区间。也可以对异质性进行调整,模拟研究的结果表明,Edgington的方法可以与更标准的元分析方法竞争。
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引用次数: 0
Exploring graphical approaches to assess the impact of an additional trial on a decision model via updated meta-analysis. 通过更新的荟萃分析,探索图形方法来评估额外试验对决策模型的影响。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-07-01 Epub Date: 2025-06-04 DOI: 10.1017/rsm.2025.10011
Will Robinson, Alex Sutton, Clareece Nevill, Nicola Cooper

Graphical displays are often utilised for high-quality reporting of meta-analyses. Previous work has presented augmentations to funnel plots that assess the impact that an additional trial would have on an existing meta-analysis. However, decision-makers, such as the National Institute for Health and Care Excellence in the United Kingdom, assess health technologies based on their cost-effectiveness, as opposed to efficacy alone. Motivated by this fact, this article outlines a novel approach, developed for augmenting funnel plots, based on the ability of an additional trial to change a decision regarding the optimal intervention. The approach is presented for a generalised class of economic decision models, where the clinical effectiveness of the health technology of interest is informed by a meta-analysis, and is illustrated with an example application. The 'decision contours' produced from the proposed methods have various potential uses not only for decision-makers and research funders but also for other researchers, such as meta-analysts and primary researchers designing new studies, as well as those developing health technologies, such as pharmaceutical companies. The relationship between the new approach and existing methods for determining sample size calculations for future trials is also considered.

图形显示通常用于高质量的元分析报告。以前的工作已经提出了漏斗图的扩展,以评估额外的试验对现有荟萃分析的影响。然而,决策者,如英国国家卫生和保健卓越研究所,评估卫生技术的依据是其成本效益,而不仅仅是功效。基于这一事实,本文概述了一种新方法,该方法基于额外试验改变有关最佳干预的决策的能力,开发了一种用于增加漏斗图的新方法。该方法是为一类广义的经济决策模型提出的,其中感兴趣的卫生技术的临床有效性是通过荟萃分析得到的,并通过示例应用进行说明。从提议的方法中产生的“决策轮廓”不仅对决策者和研究资助者有各种潜在的用途,而且对其他研究人员,例如设计新研究的元分析人员和初级研究人员,以及开发卫生技术的人员,例如制药公司,也有各种潜在的用途。本文还考虑了新方法和现有方法之间的关系,以确定未来试验的样本量计算。
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引用次数: 0
Validation of large language models (Llama 3 and ChatGPT-4o mini) for title and abstract screening in biomedical systematic reviews. 大型语言模型(Llama 3和chatgpt - 40mini)在生物医学系统评价中标题和摘要筛选的验证。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-07-01 Epub Date: 2025-03-24 DOI: 10.1017/rsm.2025.15
Adriana López-Pineda, Rauf Nouni-García, Álvaro Carbonell-Soliva, Vicente F Gil-Guillén, Concepción Carratalá-Munuera, Fernando Borrás

With the increasing volume of scientific literature, there is a need to streamline the screening process for titles and abstracts in systematic reviews, reduce the workload for reviewers, and minimize errors. This study validated artificial intelligence (AI) tools, specifically Llama 3 70B via Groq's application programming interface (API) and ChatGPT-4o mini via OpenAI's API, for automating this process in biomedical research. It compared these AI tools with human reviewers using 1,081 articles after duplicate removal. Each AI model was tested in three configurations to assess sensitivity, specificity, predictive values, and likelihood ratios. The Llama 3 model's LLA_2 configuration achieved 77.5% sensitivity and 91.4% specificity, with 90.2% accuracy, a positive predictive value (PPV) of 44.3%, and a negative predictive value (NPV) of 97.9%. The ChatGPT-4o mini model's CHAT_2 configuration showed 56.2% sensitivity, 95.1% specificity, 92.0% accuracy, a PPV of 50.6%, and an NPV of 96.1%. Both models demonstrated strong specificity, with CHAT_2 having higher overall accuracy. Despite these promising results, manual validation remains necessary to address false positives and negatives, ensuring that no important studies are overlooked. This study suggests that AI can significantly enhance efficiency and accuracy in systematic reviews, potentially revolutionizing not only biomedical research but also other fields requiring extensive literature reviews.

随着科学文献数量的增加,有必要在系统综述中简化对标题和摘要的筛选过程,减少审稿人的工作量,并最大限度地减少错误。这项研究验证了人工智能(AI)工具,特别是通过Groq的应用程序编程接口(API)的Llama 370b和通过OpenAI的API的chatgpt - 40mini,在生物医学研究中自动化这一过程。它将这些人工智能工具与人工审稿人进行了比较,使用了1081篇重复删除后的文章。每个人工智能模型在三种配置下进行测试,以评估敏感性、特异性、预测值和似然比。Llama 3模型的LLA_2配置敏感性为77.5%,特异性为91.4%,准确率为90.2%,阳性预测值(PPV)为44.3%,阴性预测值(NPV)为97.9%。chatgpt - 40迷你模型的CHAT_2配置敏感性为56.2%,特异性为95.1%,准确性为92.0%,PPV为50.6%,NPV为96.1%。两种模型均表现出较强的特异性,其中CHAT_2具有更高的总体准确性。尽管有这些有希望的结果,人工验证仍然是必要的,以解决假阳性和阴性,确保没有重要的研究被忽视。这项研究表明,人工智能可以显著提高系统综述的效率和准确性,不仅可能给生物医学研究带来革命性的变化,也可能给其他需要大量文献综述的领域带来革命性的变化。
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引用次数: 0
One-step parametric network meta-analysis models using the exact likelihood that allow for time-varying treatment effects. 一步参数网络元分析模型使用精确似然,允许时变的治疗效果。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-07-01 Epub Date: 2025-05-15 DOI: 10.1017/rsm.2025.21
Harlan Campbell, Dylan Maciel, Keith Chan, Jeroen P Jansen, Sven Klijn, Kevin Towle, Bill Malcolm, Shannon Cope

The importance of network meta-analysis (NMA) methods for time-to-event (TTE) that do not rely on the proportional hazard (PH) assumption is increasingly recognized in oncology, where clinical trials evaluating new interventions versus standard comparators often violate this assumption. However, existing NMA methods that allow for time-varying treatment effects do not directly leverage individual events and censor times that can be reconstructed from Kaplan-Meier curves, which may be more accurate than discrete hazards. They are also challenging to implement given reparameterizations that rely on discrete hazards. Additionally, two-step methods require assumptions regarding within-study normality and variance. We propose a one-step fully Bayesian parametric individual patient data (IPD)-NMA model that fits TTE data with the exact likelihood and allows for time-varying treatment effects. We define fixed or random effects with the following distributions: Weibull, Gompertz, log-normal, log-logistic, gamma, or generalized gamma distributions. We apply the one-step model to a network of randomized controlled trials (RCTs) evaluating multiple interventions for advanced melanoma and compare results with those obtained with the two-step approach. Additionally, a simulation study was performed to compare the proposed one-step method to the two-step method. The one-step method allows for straightforward model selection among the "standard" distributions, now including gamma and generalized gamma, with treatment effects on either the scale alone or with multivariate treatment effects. Generalized gamma offers flexibility to model U-shaped hazards within a network of RCTs, with accessible interpretation of parameters that simplifies to exponential, Weibull, log-normal, or gamma in special cases.

网络meta分析(NMA)方法对事件发生时间(TTE)的重要性不依赖于比例风险(PH)假设,这在肿瘤学领域得到了越来越多的认可,在肿瘤学领域,评估新干预措施与标准比较物的临床试验经常违反这一假设。然而,允许时变处理效果的现有NMA方法不能直接利用可以从Kaplan-Meier曲线重建的单个事件和审查时间,这可能比离散危险更准确。它们在实现依赖于离散危险的给定重新参数化方面也具有挑战性。此外,两步法需要对研究内正态性和方差进行假设。我们提出了一个一步全贝叶斯参数个体患者数据(IPD)-NMA模型,该模型以精确似然拟合TTE数据,并允许时变治疗效果。我们用以下分布定义固定或随机效应:Weibull, Gompertz, log-normal, log-logistic, gamma或广义gamma分布。我们将一步模型应用于随机对照试验(rct)网络,评估晚期黑色素瘤的多种干预措施,并将结果与两步方法获得的结果进行比较。此外,还进行了仿真研究,比较了所提出的一步法和两步法。一步法允许在“标准”分布中直接选择模型,现在包括伽玛和广义伽玛,治疗效果要么单独对尺度产生影响,要么对多元治疗效果产生影响。广义伽玛提供了在随机对照试验网络中模拟u型危险的灵活性,具有易于理解的参数解释,可简化为指数、威布尔、对数正态或特殊情况下的伽玛。
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引用次数: 0
An investigation of the impact of using contrast- and arm-synthesis models for network meta-analysis. 使用对比和武器综合模型进行网络元分析的影响研究。
IF 6.1 2区 生物学 Q1 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2025-07-01 Epub Date: 2025-04-25 DOI: 10.1017/rsm.2025.18
Amalia Karahalios, Ian R White, Simon L Turner, Georgia Salanti, G Peter Herbison, Areti Angeliki Veroniki, Adriani Nikolakopoulou, Joanne E McKenzie

Network meta-analysis allows the synthesis of relative effects from several treatments. Two broad approaches are available to synthesize the data: arm-synthesis and contrast-synthesis, with several models that can be fitted within each. Limited evaluations comparing these approaches are available. We re-analyzed 118 networks of interventions with binary outcomes using three contrast-synthesis models (CSM; one fitted in a frequentist framework and two in a Bayesian framework) and two arm-synthesis models (ASM; both fitted in a Bayesian framework). We compared the estimated log odds ratios, their standard errors, ranking measures and the between-trial heterogeneity using the different models and investigated if differences in the results were modified by network characteristics. In general, we observed good agreement with respect to the odds ratios, their standard errors and the ranking metrics between the two Bayesian CSMs. However, differences were observed when comparing the frequentist CSM and the ASMs to each other and to the Bayesian CSMs. The network characteristics that we investigated, which represented the connectedness of the networks and rareness of events, were associated with the differences observed between models, but no single factor was associated with the differences across all of the metrics. In conclusion, we found that different models used to synthesize evidence in a network meta-analysis (NMA) can yield different estimates of odds ratios and standard errors that can impact the final ranking of the treatment options compared.

网络荟萃分析可以综合几种治疗方法的相对效果。有两种广泛的方法可用于综合数据:武器综合和对比综合,每种方法都可以适用几个模型。比较这些方法的有限评价是可用的。我们重新分析了118个具有二元结果的干预网络,使用了三个对比综合模型(CSM,一个适用于频率论框架,两个适用于贝叶斯框架)和两个臂综合模型(ASM,都适用于贝叶斯框架)。我们使用不同的模型比较了估计的对数比值比、它们的标准误差、排序措施和试验间异质性,并研究了结果的差异是否受到网络特征的影响。总的来说,我们观察到两个贝叶斯csm之间的比值比、标准误差和排名指标有很好的一致性。然而,当比较频率主义CSM和asm相互之间以及与贝叶斯CSM时,观察到差异。我们调查的网络特征(代表网络的连通性和事件的稀缺性)与模型之间观察到的差异有关,但没有一个因素与所有指标的差异有关。总之,我们发现在网络荟萃分析(NMA)中用于综合证据的不同模型可以产生不同的优势比和标准误差估计,这可能会影响比较治疗方案的最终排名。
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引用次数: 0
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