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Assessing proarrhythmic potential of environmental chemicals using a high throughput in vitro-in silico model with human induced pluripotent stem cell-derived cardiomyocytes_suppl2 利用人诱导多能干细胞衍生心肌细胞的高通量体外硅模型评估环境化学物质的促心律失常电位
2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2306231s2
Hsing-Chieh Lin
QT prolongation and the potentially fatal arrhythmia Torsades de Pointes are common causes for withdrawing or restricting drugs; however, little is known if environmental chemicals may have similar liabilities. Current in vitro-in silico models for testing proarrhythmic liabilities, using human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CM), provide an opportunity to address this data gap. These methods are still low- to medium-throughput and not suitable for testing the tens of thousands of chemicals in commerce. We hypothesized that combining high-throughput population-based in vitro testing in hiPSC-CMs with a fully in silico data analysis workflow can offer sensitive and specific predictions of proarrhythmic potential. We calibrated the model with a published hiPSC-CM dataset of drugs known to be positive or negative for proarrhythmia and tested its performance using internal cross-validation and external validation. Additionally, we used computational down-sampling to examine three study designs for hiPSC-CM data: one replicate of one donor, five replicates of one donor, and one replicate of a population of five donors. We found that the population of five donors had the best performance for predicting proarrhythmic potential. The resulting model was then applied to predict the proarrhythmic potential of environmental chemicals, additionally characterizing risk through margin of exposure (MOE) calculations. Out of over 900 environmental chemicals tested, over 150 were predicted to have proarrhythmic potential, but only seven chemicals have MOE < 1. We conclude that a high throughput in vitro-in silico approach using population-based hiPSC-CM testing provides a reasonable approach to screening environmental chemicals for proarrhythmic potential.
QT间期延长和潜在致命性心律失常是停药或限制用药的常见原因;然而,人们对环境化学品是否也有类似的责任知之甚少。目前使用人类诱导多能干细胞衍生心肌细胞(hiPSC-CM)测试促心律失常性的体外硅模型为解决这一数据缺口提供了机会。这些方法仍然是中低通量,不适合测试商业上数以万计的化学品。我们假设结合hiPSC-CMs的高通量基于人群的体外测试与全硅数据分析工作流程可以提供敏感和特定的心律失常电位预测。我们使用已发表的hiPSC-CM数据集校准了该模型,该数据集包含已知对心律失常呈阳性或阴性的药物,并使用内部交叉验证和外部验证测试了其性能。此外,我们使用计算降采样来检查hiPSC-CM数据的三种研究设计:一个供体的一个重复,一个供体的五个重复,以及五个供体的一个重复。我们发现5个供体在预测心律失常的可能性方面表现最好。然后将所得模型应用于预测环境化学物质的致心律失常潜力,并通过暴露边际(MOE)计算进一步表征风险。在测试的900多种环境化学物质中,预计有150多种具有诱发心律失常的潜力,但只有7种化学物质具有MOE。1. 我们得出结论,采用基于人群的hiPSC-CM测试的高通量体外硅方法为筛选环境化学物质的促心律失常电位提供了合理的方法。
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引用次数: 0
Intestinal in vitro transport assay combined with physiologically based kinetic modeling as a tool to predict bile acid levels in vivo_suppl2 肠道体外转运试验结合基于生理的动力学模型作为预测体内胆汁酸水平的工具2
2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2302011s2
Véronique de Bruijn
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引用次数: 0
Women in Alternatives. 女性的选择。
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2303211
Francesca Caloni, Isabella De Angelis, Laura Gribaldo, Tuula Heinonen, Helena Kandarova, Vivian Kral, Silvia Letasiova, Fenna Sillé, Lena Smirnova, Maria Pilar Vinardell, Thomas Hartung
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引用次数: 0
Evaluation of 147 perfluoroalkyl substances for immunotoxic and other (patho)physiological activities through phenotypic screening of human primary cells. 通过对人类原代细胞进行表型筛选,评估 147 种全氟烷基物质的免疫毒性和其他(病理)生理活性。
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 Epub Date: 2022-09-15 DOI: 10.14573/altex.2203041
Keith A Houck, Katie Paul Friedman, Madison Feshuk, Grace Patlewicz, Marci Smeltz, M Scott Clifton, Barbara A Wetmore, Sharlene Velichko, Antal Berenyi, Ellen L Berg

A structurally diverse set of 147 per- and polyfluoroalkyl substances (PFAS) was screened in a panel of 12 human primary cell systems by measuring 148 biomarkers relevant to (patho)physiological pathways to inform hypotheses about potential mechanistic effects of data-poor PFAS in human model systems. This analysis focused on immunosuppressive activity, which was previously reported as an in vivo effect of perfluorooctanoic acid (PFOA) and perfluorooctanesulfonic acid (PFOS), by comparing PFAS responses to four pharmacological immunosuppressants. The PFOS response profile had little correlation with reference immunosuppressants, suggesting in vivo activity does not occur by similar mechanisms. The PFOA response profile did share features with the profile of dexamethasone, although some distinct features were lacking. Other PFAS, including 2,2,3,3-tetrafluoropropyl acrylate, demonstrated more similarity to the reference immunosuppressants but with additional activities not found in the reference immunosuppressive drugs. Correlation of PFAS profiles with a database of environmental chemical responses and pharmacological probes identified potential mechanisms of bioactivity for some PFAS, including responses similar to ubiquitin ligase inhibitors, deubiquitylating enzyme (DUB) inhibitors, and thioredoxin reductase inhibitors. Approximately 21% of the 147 PFAS with confirmed sample quality were bioactive at nominal testing concentrations in the 1-60 micromolar range in these human primary cell systems. These data provide new hypotheses for mechanisms of action for a subset of PFAS and may further aid in development of a PFAS categorization strategy useful in safety assessment.

通过测量与(病理)生理途径相关的 148 个生物标记物,在 12 个人类原代细胞系统中筛选了一组结构多样的 147 种全氟化烷基和多氟化烷基物质(PFAS),以便为有关缺乏数据的 PFAS 在人类模型系统中的潜在机理效应的假设提供信息。通过比较全氟辛烷磺酸和全氟辛烷磺酸与四种药理免疫抑制剂的反应,该分析重点关注了免疫抑制活性,之前有报道称免疫抑制活性是全氟辛酸和全氟辛烷磺酸的体内效应。全氟辛烷磺酸的反应谱与参考免疫抑制剂几乎没有关联,这表明体内活性不是通过类似的机制产生的。全氟辛烷磺酸的反应谱与地塞米松的反应谱有相似之处,但缺乏一些明显的特征。包括 2,2,3,3- 四氟丙烯酸酯在内的其他全氟辛烷磺酸与参考免疫抑制剂更为相似,但具有参考免疫抑制剂所没有的额外活性。全氟辛烷磺酸的特征与环境化学反应和药理学探针数据库的相关性确定了某些全氟辛烷磺酸的潜在生物活性机制,包括与泛素连接酶抑制剂、去泛素化酶(DUB)抑制剂和硫代氧化还原酶抑制剂相似的反应。在样品质量得到确认的 147 种全氟辛烷磺酸中,约有 21% 在这些人类原代细胞系统中的标称测试浓度为 1-60 微摩尔范围时具有生物活性。这些数据为全氟辛烷磺酸子集的作用机制提供了新的假设,并可能进一步帮助制定有助于安全评估的全氟辛烷磺酸分类策略。
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引用次数: 3
Beyond Animal Testing Index: Benchmarking tool for a world beyond animal testing_suppl3 超越动物测试指数:超越动物测试世界的基准工具
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2304161s3
C. Krul
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引用次数: 0
Assessing proarrhythmic potential of environmental chemicals using a high throughput in vitro-in silico model with human induced pluripotent stem cell-derived cardiomyocytes_suppl1 利用人诱导多能干细胞衍生心肌细胞的高通量体外硅模型评估环境化学物质的促心律失常电位
2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2306231s1
Hsing-Chieh Lin
QT prolongation and the potentially fatal arrhythmia Torsades de Pointes are common causes for withdrawing or restricting drugs; however, little is known if environmental chemicals may have similar liabilities. Current in vitro-in silico models for testing proarrhythmic liabilities, using human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CM), provide an opportunity to address this data gap. These methods are still low- to medium-throughput and not suitable for testing the tens of thousands of chemicals in commerce. We hypothesized that combining high-throughput population-based in vitro testing in hiPSC-CMs with a fully in silico data analysis workflow can offer sensitive and specific predictions of proarrhythmic potential. We calibrated the model with a published hiPSC-CM dataset of drugs known to be positive or negative for proarrhythmia and tested its performance using internal cross-validation and external validation. Additionally, we used computational down-sampling to examine three study designs for hiPSC-CM data: one replicate of one donor, five replicates of one donor, and one replicate of a population of five donors. We found that the population of five donors had the best performance for predicting proarrhythmic potential. The resulting model was then applied to predict the proarrhythmic potential of environmental chemicals, additionally characterizing risk through margin of exposure (MOE) calculations. Out of over 900 environmental chemicals tested, over 150 were predicted to have proarrhythmic potential, but only seven chemicals have MOE < 1. We conclude that a high throughput in vitro-in silico approach using population-based hiPSC-CM testing provides a reasonable approach to screening environmental chemicals for proarrhythmic potential.
QT间期延长和潜在致命性心律失常是停药或限制用药的常见原因;然而,人们对环境化学品是否也有类似的责任知之甚少。目前使用人类诱导多能干细胞衍生心肌细胞(hiPSC-CM)测试促心律失常性的体外硅模型为解决这一数据缺口提供了机会。这些方法仍然是中低通量,不适合测试商业上数以万计的化学品。我们假设结合hiPSC-CMs的高通量基于人群的体外测试与全硅数据分析工作流程可以提供敏感和特定的心律失常电位预测。我们使用已发表的hiPSC-CM数据集校准了该模型,该数据集包含已知对心律失常呈阳性或阴性的药物,并使用内部交叉验证和外部验证测试了其性能。此外,我们使用计算降采样来检查hiPSC-CM数据的三种研究设计:一个供体的一个重复,一个供体的五个重复,以及五个供体的一个重复。我们发现5个供体在预测心律失常的可能性方面表现最好。然后将所得模型应用于预测环境化学物质的致心律失常潜力,并通过暴露边际(MOE)计算进一步表征风险。在测试的900多种环境化学物质中,预计有150多种具有诱发心律失常的潜力,但只有7种化学物质具有MOE。1. 我们得出结论,采用基于人群的hiPSC-CM测试的高通量体外硅方法为筛选环境化学物质的促心律失常电位提供了合理的方法。
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引用次数: 0
Comparison of piecewise structural equation modeling and Bayesian network for de novo construction of a quantitative adverse outcome pathway network. 分段结构方程模型与贝叶斯网络重新构建定量不良后果路径网络的比较。
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2207113
Yang Cao, S Jannicke Moe, Riccardo De Bin, Knut Erik Tollefsen, You Song

Quantitative adverse outcome pathway network (qAOPN) is gaining momentum due to its predictive nature, alignment with quantitative risk assessment, and great potential as a computational new approach methodology (NAM) to reduce laboratory animal tests. The present work aimed to demonstrate two advanced modeling approaches, piecewise structural equation modeling (PSEM) and Bayesian network (BN), for de novo qAOPN model construction based on routine ecotoxicological data. A previously published AOP network comprised of four linear AOPs linking excessive reactive oxygen species production to mortality in aquatic organisms was employed as a case study. The demonstrative case study intended to answer: Which linear AOP in the network contributed the most to the AO? Can any of the upstream KEs accurately predict the AO? What are the advantages and limitations of PSEM or BN in qAOPN development? The outcomes from the two approaches showed that both PSEM and BN are suitable for constructing a complex qAOPN based on limited experimental data. Besides quantification of response-response relationships, both approaches could identify the most influencing linear AOP in a complex network and evaluate the predictive ability of the AOP, albeit some discrepancies in predictive ability were identified for the two approaches using this specific dataset. The advantages and limitations of the two approaches for qAOPN construction are discussed in detail, and suggestions on optimal workflows of PSEM and BN are provided to guide future qAOPN development.

定量不良后果通路网络(qAOPN)由于其预测性、与定量风险评估相一致以及作为一种减少实验动物试验的计算新方法(NAM)的巨大潜力而获得势头。本工作旨在展示两种先进的建模方法,即分段结构方程模型(PSEM)和贝叶斯网络(BN),用于基于常规生态毒理学数据的从头构建qAOPN模型。先前发表的AOP网络由四个线性AOP组成,将过量活性氧的产生与水生生物的死亡率联系起来,作为案例研究。演示性案例研究旨在回答:网络中哪个线性AOP对AO贡献最大?上游的ke能准确预测AO吗?在qAOPN发展中,PSEM或BN的优势和局限性是什么?两种方法的结果表明,基于有限的实验数据,PSEM和BN都适用于构建复杂的qAOPN。除了量化响应-响应关系之外,这两种方法都可以识别复杂网络中最具影响力的线性AOP并评估AOP的预测能力,尽管使用该特定数据集确定了两种方法在预测能力方面的一些差异。详细讨论了两种构建qAOPN的方法的优点和局限性,并提出了优化PSEM和BN工作流程的建议,以指导未来qAOPN的发展。
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引用次数: 0
Comparing translational success rates across medical research fields - A combined analysis of literature and clinical trial data. 比较医学研究领域的转化成功率——文献和临床试验数据的综合分析。
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 Epub Date: 2023-05-05 DOI: 10.14573/altex.2208261
Gwen Van de Wall, Astrid Van Hattem, Joy Timmermans, Merel Ritskes-Hoitinga, André Bleich, Cathalijn Leenaars

Many interventions that show promising results in preclinical development do not pass clinical tests. Part of this may be explained by poor animal-to-human translation. Using animal models with low predictability for humans is neither ethical nor efficient. If translational success shows variation between medical research fields, analyses of common practices in these fields could identify factors contributing to successful translation. We assessed translational success rates in medical research fields using two approaches: through literature and clinical trial registers.Literature: We comprehensively searched PubMed for pharmacology, neuroscience, cancer research, animal models, clinical trials, and translation. After screening, 117 review papers were included in this scoping review. Translational success rates were not different within pharmacology (72%), neuroscience (62%), and cancer research (69%).Clinical trials: The fraction of phase-2 clinical trials with a positive outcome was used as a proxy (i.e., an indirect resemblance measure) for translational success. Trials were retrieved from the WHO trial register and categorized into medical research fields following the international classification of disease (ICD-10). Of the phase-2 trials analyzed, 65.2% were successful. Fields with the highest success rates were disorders of lipoprotein metabolism (86.0%) and epilepsy (85.0%). Fields with the lowest success rates were schizophrenia (45.4%) and pancreatic cancer (46.0%).Our combined analyses suggest relevant differences in success rates between medical research fields. Based on the clinical trials, comparisons of practice, e.g., between epilepsy and schizophrenia, might identify factors that influence translational success.

许多在临床前发展中显示出有希望结果的干预措施没有通过临床测试。部分原因可能是动物对人类的翻译不好。使用人类可预测性低的动物模型既不符合伦理,也没有效率。如果翻译的成功表明医学研究领域之间存在差异,那么分析这些领域的常见做法可以确定促成翻译成功的因素。我们使用两种方法评估了医学研究领域的转化成功率:通过文献和临床试验注册。文献:我们综合检索了PubMed的药理学、神经科学、癌症研究、动物模型、临床试验和翻译。经过筛选,117篇综述论文被纳入本次范围界定综述。药理学(72%)、神经科学(62%)和癌症研究(69%)的转化成功率没有差异。临床试验:2期临床试验中结果为阳性的部分被用作转化成功的代理(即间接相似性测量)。试验从世界卫生组织试验登记册中检索,并按照国际疾病分类(ICD-10)分类为医学研究领域。在分析的2期试验中,65.2%的试验成功。成功率最高的领域是脂蛋白代谢障碍(86.0%)和癫痫(85.0%)。成功率最低的领域是精神分裂症(45.4%)和胰腺癌症(46.0%)。我们的综合分析表明,医学研究领域之间的成功率存在相关差异。根据临床试验,对实践进行比较,例如癫痫和精神分裂症之间的比较,可能会确定影响转化成功的因素。
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引用次数: 2
Exploration of the GARD™skin applicability domain: Indirectly acting haptens, hydrophobic substances and UVCBs. 探索GARD™皮肤适用领域:间接作用半抗原,疏水物质和uvcb。
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 DOI: 10.14573/altex.2201281
Andy Forreryd, Robin Gradin, Charles Humfrey, Len Sweet, Henrik Johansson

Hazard assessments of skin sensitizers are increasingly performed using new approach methodologies (NAMs), with several in chemico, in vitro, and most recently, also defined approaches accepted for regulatory use. However, keeping track of potential limitations of each method to define applicability domains remains a crucial component to ensure adequate predictivity and to facilitate the appropriate selection of method(s) for each hazard assessment task. The objective of this report is to share test results generated with the GARD™skin assay on chemicals that have traditionally been considered difficult to test in some of the conventional in vitro and in chemico OECD Test Guidelines for skin sensitization. Such compounds may include, for example, indirectly acting haptens, hydrophobic substances, and substances of unknown or variable composition, complex reaction products or biological substances (UVCBs). Based on the results of this study, the sensitivity for prediction of skin sensitizing hazard of indirectly acting haptens was 92.4% and 87.5% when compared with local lymph node assay (LLNA) (n = 25) and human data (n = 8), respectively. Similarly, the sensitivity for prediction of skin sensitizing hazard of hydrophobic substances was 85.1% and 100% when compared with LLNA (n = 24) and human data (n = 9), respectively. Lastly, a case study involving assessment of a set of hydrophobic UVCBs (n = 7) resulted in a sensitivity of 100% compared to available reference data. These data provide support for the inclusion of such chemistries in the GARD™skin applicability domain without an increased risk of false negative classifications.

皮肤致敏剂的危害评估越来越多地使用新的方法方法(NAMs)进行,其中有几种化学方法、体外方法和最近也定义了用于监管使用的方法。然而,跟踪每种方法的潜在局限性以确定适用领域仍然是确保充分的预测性和促进为每个危害评估任务适当选择方法的关键组成部分。本报告的目的是分享GARD™皮肤试验对传统上被认为难以在一些常规体外和OECD皮肤致敏化学测试指南中测试的化学品产生的测试结果。这些化合物可以包括,例如,间接作用的半抗原、疏水物质、未知或可变组成的物质、复杂反应产物或生物物质(UVCBs)。根据本研究结果,与局部淋巴结测定法(LLNA) (n = 25)和人体数据(n = 8)相比,间接作用半抗原预测皮肤致敏危害的敏感性分别为92.4%和87.5%。同样,与LLNA (n = 24)和人类数据(n = 9)相比,该方法预测疏水物质皮肤致敏危害的敏感性分别为85.1%和100%。最后,一项涉及一组疏水uvcb评估的案例研究(n = 7)与现有参考数据相比,其灵敏度为100%。这些数据为将这些化学物质纳入GARD™皮肤适用性领域提供了支持,而不会增加假阴性分类的风险。
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引用次数: 3
Development of physiologically-based gut absorption model for probabilistic prediction of environmental chemical bioavailability. 开发基于生理学的肠道吸收模型,用于环境化学品生物利用率的概率预测。
IF 5.6 2区 医学 Q1 Health Professions Pub Date : 2023-01-01 Epub Date: 2023-05-03 DOI: 10.14573/altex.2210031
Hsing-Chieh Lin, Weihsueh A Chiu

Absorption in the gastrointestinal tract is a key factor determining the bioavailability of chemicals after oral exposure but is frequently assumed to have a conservative value of 100% for environmental chemicals, particularly in the context of high-throughput toxicokinetics for in vitro-to-in vivo extrapolation (IVIVE). For pharmaceutical compounds, the physiologically based advanced compartmental absorption and transit (ACAT) model has been used extensively to predict gut absorption but has not generally been applied to environmental chemicals. Here we develop a probabilistic environmental compart­mental absorption and transit (PECAT) model, adapting the ACAT model to environmental chemicals. We calibrated the model parameters to human in vivo, ex vivo, and in vitro datasets of drug permeability and fractional absorption by con­sidering two key factors: (1) differences between permeability in Caco-2 cells and in vivo permeability in the jejunum, and (2) differences in in vivo permeability across different gut segments. Incorporating these factors probabilistically, we found that given Caco-2 permeability measurements, predictions of the PECAT model are consistent with the (limited) available gut absorption data for environmental chemicals. However, the substantial chemical-to-chemical variability observed in the cal­ibration data often led to wide probabilistic confidence bounds in the predicted fraction absorbed and resulting steady state blood concentration. Thus, while the PECAT model provides a statistically rigorous, physiologically based approach for incor­porating in vitro data on gut absorption into toxicokinetic modeling and IVIVE, it also highlights the need for more accurate in vitro models and data for measuring gut segment-specific in vivo permeability of environmental chemicals.

胃肠道吸收是决定口服接触后化学品生物利用率的一个关键因素,但对于环境化学品来说,胃肠道吸收通常被假定为 100%的保守值,尤其是在用于体外到体内外推法(IVIVE)的高通量毒物动力学中。对于药物化合物,基于生理学的高级分区吸收和转运(ACAT)模型已被广泛用于预测肠道吸收,但尚未普遍应用于环境化学品。在此,我们开发了一种概率环境分区吸收和转运(PECAT)模型,将 ACAT 模型调整为环境化学品模型。考虑到两个关键因素,我们根据人体体内、体外和体外药物渗透性和部分吸收数据集校准了模型参数:(1) Caco-2 细胞渗透性与空肠体内渗透性之间的差异,以及 (2) 不同肠段体内渗透性的差异。通过对这些因素进行概率性分析,我们发现,根据 Caco-2 细胞的渗透性测量结果,PECAT 模型的预测结果与现有的(有限的)环境化学品肠道吸收数据是一致的。然而,在校准数据中观察到的化学品之间的巨大差异往往会导致预测的吸收率和由此产生的稳态血药浓度的概率置信区间很宽。因此,虽然 PECAT 模型为将肠道吸收的体外数据纳入毒物动力学建模和 IVIVE 提供了一种统计上严格的、基于生理学的方法,但它也强调了需要更准确的体外模型和数据来测量环境化学物质的肠道特异性体内渗透性。
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引用次数: 0
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