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Predicting the clinical subcutaneous absorption rate constant of monoclonal antibodies using only the primary sequence: a machine learning approach. 仅使用主序列预测单克隆抗体的临床皮下吸收率常数:一种机器学习方法。
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-01-01 Epub Date: 2024-05-14 DOI: 10.1080/19420862.2024.2352887
Ronghua Bei, Justin Thomas, Shiven Kapur, Mahlet Woldeyes, Adam Rauk, Jason Robarge, Jiangyan Feng, Kaoutar Abbou Oucherif

Subcutaneous injections are an increasingly prevalent route of administration for delivering biological therapies including monoclonal antibodies (mAbs). Compared with intravenous delivery, subcutaneous injections reduce administration costs, shorten the administration time, and are strongly preferred from a patient experience point of view. An understanding of the absorption process of a mAb from the injection site to the systemic circulation is critical to the process of subcutaneous mAb formulation development. In this study, we built a model to predict the absorption rate constant (ka), which denotes how fast a mAb is absorbed from the site of administration. Once trained, our model (enabled by the XGBoost algorithm in machine learning) can predict the ka of a mAb following a subcutaneous injection using in silico molecular properties alone (generated from the primary sequence). Our model does not need clinically observed plasma concentration-time data; this is a novel capability not previously achieved in predictive pharmacokinetic models. The model also showed improved performance when benchmarked against a recently reported mechanistic model that relied on clinical data to predict subcutaneous absorption of mAbs. We further interpreted the model to understand which molecular properties affect the absorption rate and showed that our findings are consistent with previous studies evaluating subcutaneous absorption through direct experimentation. Taken altogether, this study reports the development, validation, benchmarking, and interpretation of a model that can predict the clinical ka of a mAb using its primary sequence as the only input.

皮下注射是一种越来越普遍的生物疗法给药途径,包括单克隆抗体(mAbs)。与静脉给药相比,皮下注射可降低给药成本、缩短给药时间,而且从患者体验的角度来看,皮下注射更受青睐。了解 mAb 从注射部位到全身循环的吸收过程对于皮下注射 mAb 制剂的开发至关重要。在这项研究中,我们建立了一个模型来预测吸收率常数 (ka),它表示 mAb 从给药部位吸收的速度。训练完成后,我们的模型(通过机器学习中的 XGBoost 算法实现)就能仅利用硅分子特性(由主序列生成)预测 mAb 皮下注射后的 ka。我们的模型不需要临床观察到的血浆浓度-时间数据;这是预测性药代动力学模型以前从未实现过的新功能。与最近报道的依赖临床数据预测 mAbs 皮下吸收的机理模型相比,该模型的性能也有所提高。我们进一步解释了该模型,以了解哪些分子特性会影响吸收率,结果表明我们的发现与之前通过直接实验评估皮下吸收的研究结果一致。总之,本研究报告了一个模型的开发、验证、基准测试和解释,该模型可以使用 mAb 的主序列作为唯一输入来预测其临床 ka。
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引用次数: 0
Proceedings of the 14th European immunogenicity platform open symposium on immunogenicity of biopharmaceuticals. 第 14 届欧洲免疫原性平台生物制药免疫原性公开研讨会论文集》。
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-01-01 Epub Date: 2024-03-05 DOI: 10.1080/19420862.2024.2324801
Sophie Tourdot, Daniel Baltrunkonis, Sofie Denies, Viswanath Devanarayan, Joanna Grudzinska-Goebel, Arno Kromminga, Gregor P Lotz, Laurent Malherbe, Lydia Michaut, Karin N Weldingh, Joao A Pedras-Vasconcelos, Laura I Salazar-Fontana, Sebastian Spindeldreher, Zuben Sauna, Veerle Snoeck, Daniela Verthelyi, Daniel Kramer

Biologics have revolutionized disease management in many therapeutic areas by addressing unmet medical needs and overcoming resistance to standard-of-care treatment in numerous patients. However, the development of unwanted immune responses directed against these drugs, humoral and/or cellular, can hinder their efficacy and have safety consequences with various degrees of severity. Health authorities ask that a thorough immunogenicity risk assessment be conducted during drug development to incorporate an appropriate monitoring and mitigation plan in clinical studies. With the rapid diversification and complexification of biologics, which today include modalities such as multi-domain antibodies, cell-based products, AAV delivery vectors, and nucleic acids, developers are faced with the challenge of establishing a risk assessment strategy sometimes in the absence of specific regulatory guidelines. The European Immunogenicity Platform (EIP) Open Symposium on Immunogenicity of Biopharmaceuticals and its one-day training course gives experts and newcomers across academia, industry, and regulatory agencies an opportunity to share experience and knowledge to overcome these challenges. Here, we report the discussions that took place at the EIP's 14th Symposium, held in April 2023. The topics covered included immunogenicity monitoring and clinical relevance, non-clinical immunogenicity risk assessment, regulatory aspects of immunogenicity assessment and reporting, and the challenges associated with new modalities, which were discussed in a dedicated session.

生物制剂解决了许多治疗领域未得到满足的医疗需求,克服了许多患者对标准疗法的耐药性,从而彻底改变了疾病的治疗。然而,针对这些药物的体液和/或细胞免疫反应可能会阻碍药物的疗效,并带来不同程度的安全后果。卫生部门要求在药物开发过程中进行全面的免疫原性风险评估,以便在临床研究中纳入适当的监测和缓解计划。目前,生物制剂包括多域抗体、细胞产品、AAV 运载载体和核酸等模式,随着生物制剂的快速多样化和复杂化,开发人员面临着制定风险评估策略的挑战,有时甚至缺乏具体的监管指南。欧洲免疫原性平台(EIP)生物制药免疫原性公开研讨会及其为期一天的培训课程为学术界、工业界和监管机构的专家和新手提供了一个分享经验和知识的机会,以克服这些挑战。我们在此报告 2023 年 4 月举行的第 14 届 EIP 研讨会的讨论情况。讨论的主题包括免疫原性监测和临床相关性、非临床免疫原性风险评估、免疫原性评估和报告的监管问题以及与新模式相关的挑战。
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引用次数: 0
Understanding the impacts of dual methionine oxidations in complementarity-determining regions on the structure of monoclonal antibodies. 了解互补性决定区的双蛋氨酸氧化对单克隆抗体结构的影响。
IF 5.6 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-01-01 Epub Date: 2024-11-02 DOI: 10.1080/19420862.2024.2422898
Bo Zhao, Joy Yoon, Bojie Zhang, Youmi Moon, Yue Fu, Yinyin Li, Yunlong Zhao, Hui Xiao, Ning Li

Methionine oxidation can substantially alter the structure and functionality of monoclonal antibodies (mAbs), especially when it occurs in the complementarity-determining regions (CDRs). It is imperative to fully understand the effects of methionine oxidation because these modifications can affect the binding affinity, stability, and immunogenicity of mAbs. Moreover, the presence of multiple methionines in close proximity within the amino acid sequence increases the complexity of accurate characterization, and sophisticated analytical methods are required to detect these modifications. In this study, we used hydrogen deuterium exchange mass spectrometry (HDX-MS) and homology modeling to investigate the effects of dual methionine oxidations (heavy chain (HC) Met111 and Met115) within a single CDR on the structure of a mAb. Our findings reveal that the solvent-accessible methionine (HC Met111) is more prone to oxidation, but such a modification does not result in conformational changes in the mAb. In contrast, the methionine (HC Met115) at the VH-VL interface, when subjected to different oxidative stresses, can undergo oxidation with selective stereochemistry. This can lead to predominant formation of either the S- or R-form of methionine sulfoxide diastereomer, each of which can induce distinct local conformational changes. A mechanism is proposed to elucidate these observations in this particular antibody. Furthermore, binding assays confirm that both CDR methionine oxidations do not compromise antigen binding, which alleviates concerns about potential loss of therapeutic efficacy.

蛋氨酸氧化可大大改变单克隆抗体(mAbs)的结构和功能,尤其是当它发生在互补性决定区(CDR)时。当务之急是充分了解蛋氨酸氧化的影响,因为这些修饰会影响 mAbs 的结合亲和力、稳定性和免疫原性。此外,氨基酸序列中多个蛋氨酸非常接近,这增加了准确表征的复杂性,需要复杂的分析方法来检测这些修饰。在本研究中,我们使用氢氘交换质谱(HDX-MS)和同源模型研究了单个 CDR 中双蛋氨酸氧化(重链 (HC) Met111 和 Met115)对 mAb 结构的影响。我们的研究结果表明,可溶解的蛋氨酸(HC Met111)更容易被氧化,但这种修饰不会导致 mAb 的构象发生变化。相反,位于 VH-VL 界面的蛋氨酸(HC Met115)在受到不同的氧化压力时,会发生选择性立体化学氧化。这可能会导致主要形成 S 型或 R 型蛋氨酸亚砜非对映异构体,而每种非对映异构体都会引起不同的局部构象变化。我们提出了一种机制来解释这种特殊抗体中的这些观察结果。此外,结合试验证实,两种 CDR 蛋氨酸氧化作用都不会影响抗原结合,从而减轻了人们对可能丧失疗效的担忧。
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引用次数: 0
Developability considerations for bispecific and multispecific antibodies. 双特异性和多特异性抗体的可开发性考虑因素。
IF 5.6 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-01-01 Epub Date: 2024-08-27 DOI: 10.1080/19420862.2024.2394229
Alaa Amash, Gesa Volkers, Patrick Farber, Daniel Griffin, K Shawn Davison, Allison Goodman, Raffi Tonikian, Aaron Yamniuk, Bryan Barnhart, Tim Jacobs

Bispecific antibodies (bsAb) and multispecific antibodies (msAb) encompass a diverse variety of formats that can concurrently bind multiple epitopes, unlocking mechanisms to address previously difficult-to-treat or incurable diseases. Early assessment of candidate developability enables demotion of antibodies with low potential and promotion of the most promising candidates for further development. Protein-based therapies have a stringent set of developability requirements in order to be competitive (e.g. high-concentration formulation, and long half-life) and their assessment requires a robust toolkit of methods, few of which are validated for interrogating bsAbs/msAbs. Important considerations when assessing the developability of bsAbs/msAbs include their molecular format, likelihood for immunogenicity, specificity, stability, and potential for high-volume production. Here, we summarize the critical aspects of developability assessment, and provide guidance on how to develop a comprehensive plan tailored to a given bsAb/msAb.

双特异性抗体(bsAb)和多特异性抗体(msAb)包含多种多样的形式,可同时结合多个表位,为解决以往难以治疗或无法治愈的疾病提供了新的机制。通过对候选抗体的可开发性进行早期评估,可以将潜力较低的抗体降级,将最有前途的候选抗体提升到进一步开发的水平。基于蛋白质的疗法要想具有竞争力(如高浓度制剂和长半衰期),对可开发性有一系列严格的要求,对它们的评估需要一套强大的方法工具包,而其中很少有经过验证可用于检测 bsAbs/msAbs 的方法。在评估 bsAbs/msAbs 的可开发性时,重要的考虑因素包括其分子形式、免疫原性的可能性、特异性、稳定性和大批量生产的潜力。在此,我们总结了可开发性评估的关键方面,并就如何针对特定 bsAb/msAb 制定全面计划提供指导。
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引用次数: 0
Multivariate quantitative analysis of glycan impact on IgG1 effector functions. 聚糖对 IgG1 效应功能影响的多元定量分析
IF 5.6 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-01-01 Epub Date: 2024-11-21 DOI: 10.1080/19420862.2024.2430295
Tamara Cvijić, Matej Horvat, Jakob Plahutnik, Ana Golob, Jaka Marušič

Development of novel therapeutic proteins and biosimilars requires a thorough understanding of the relationship between their structure and function. Particularly, how IgG glycosylation affects its effector functions is a point increasingly underscored in guidelines by the World Health Organization and regulatory agencies. Our results show that just a 1% decrease in Fc fucosylation can lead to a more than 25% increase in antibody-dependent cell-mediated cytotoxicity. The intercorrelated nature of glycan patterns, combined with the low variability and lack of well-defined glycan patterns in process development and manufacture samples, makes studying the effects of individual glycan structures challenging. The conventional approach to structure-function studies often relies on a suboptimal set of tools, such as the one-factor-at-a-time method for experimental planning and univariate data analysis. Here, we introduce a systematic approach to understanding and prediction of the impact of Fc glycans on effector functions, using a combination of the design of experiment, multivariate data analysis, and in-vitro glycoengineering. This approach adheres to quality-by-design principles and aligns with regulatory agency guidelines. A variety of analytical assays, including binding and cell-based assays, were applied to investigate the effect of individual glycans of the IgG1 molecule. The regression models developed here provide a quantitative explanation and prediction of the impact of individual glycan features on the binding to FcγRs and bioactivity of the therapeutic protein. To the best of our knowledge, this is the first report of a systematic approach to quantitatively understand the multivariate impact of glycosylation on the effector functionality of therapeutic monoclonal antibodies, providing valuable tools for advancing therapeutic protein development.

开发新型治疗蛋白质和生物仿制药需要全面了解其结构和功能之间的关系。尤其是IgG糖基化如何影响其效应功能,这一点在世界卫生组织和监管机构的指导方针中日益得到强调。我们的研究结果表明,Fc岩藻糖基化每减少1%,抗体依赖性细胞介导的细胞毒性就会增加25%以上。由于聚糖模式之间相互关联,再加上工艺开发和生产样品中聚糖模式的可变性低且缺乏明确定义,因此研究单个聚糖结构的影响具有挑战性。结构-功能研究的传统方法往往依赖于一套次优工具,如用于实验规划和单变量数据分析的 "一次一因素法"。在此,我们介绍一种系统的方法,结合使用实验设计、多元数据分析和体外糖工程,来理解和预测 Fc 聚糖对效应物功能的影响。这种方法符合设计质量原则和监管机构的指导方针。为了研究 IgG1 分子中各个聚糖的影响,我们采用了多种分析测试方法,包括结合和基于细胞的分析测试。本文开发的回归模型提供了单个聚糖特征对治疗蛋白与 FcγRs 结合及生物活性影响的定量解释和预测。据我们所知,这是第一份用系统方法定量了解糖基化对治疗性单克隆抗体效应功能的多变量影响的报告,为推进治疗性蛋白质的开发提供了宝贵的工具。
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引用次数: 0
Accelerating the speed of innovative anti-tumor drugs to first-in-human trials incorporating key de-risk strategies 采用关键的降低风险策略,加快创新抗肿瘤药物进行首次人体试验的速度
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2023-12-14 DOI: 10.1080/19420862.2023.2292305
Yuqi Wang, Quan Quan, Camille Gleason, Helin Yu, Lujia Peng, Yanshen Kang, Ling Jiang, Kailun Wu, Jie Pan, Moxiyele Bao, Qing Zhu, Meiqi Yi, Ming Fang, Yue Zheng, Ling Qiu, Bin Xu, Xiang Li, Jinfeng Song, Jiamu Sun, Zheng Zhang, Zijun Su, Jara Lin, Yuanyuan Xie, April Xu, Xiling Song, Chichi Huang, Zhirong Shen, Lai Wang, Jing Song
Pharmaceutical companies have recently focused on accelerating the timeline for initiating first-in-human (FIH) trials to allow quick assessment of biologic drugs. For example, a stable cell pool c...
制药公司最近专注于加快启动首次人体试验(FIH)的时间表,以便对生物药物进行快速评估。例如,一个稳定的cell pool c…
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引用次数: 0
Determining the affinities of high-affinity antibodies using KinExA and surface plasmon resonance 利用 KinExA 和表面等离子体共振确定高亲和力抗体的亲和力
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2023-12-13 DOI: 10.1080/19420862.2023.2291209
M. Frank Erasmus, Molly Dovner, Fortunato Ferrara, Sara D’Angelo, André A. Teixeira, Camila Leal-Lopes, Laura Spector, Elizabeth Hopkins, Andrew R. M. Bradbury
Accurate and efficient affinity measurement techniques are essential for the biophysical characterization of therapeutic monoclonal antibodies, one of the fastest growing drug classes. Surface plas...
治疗性单克隆抗体是发展最快的药物类别之一,准确、高效的亲和力测量技术对于治疗性单克隆抗体的生物物理特性至关重要。表面塑料…
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引用次数: 0
Discovery of ginisortamab, a potent and novel anti-gremlin-1 antibody in clinical development for the treatment of cancer 发现吉尼索坦单抗--一种用于治疗癌症的临床开发中的强效新型抗格雷姆林-1 抗体
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2023-12-12 DOI: 10.1080/19420862.2023.2289681
Gareth C. G. Davies, Neesha Dedi, Paul S. Jones, Lara Kevorkian, David McMillan, Cristina Ottone, Monika-Sarah E. D. Schulze, Anthony Scott-Tucker, Roohi Tewari, Shauna West, Michael Wright, Tania F. Rowley
Gremlin-1, a high-affinity antagonist of bone morphogenetic proteins (BMP)-2, −4, and −7, is implicated in tumor initiation and progression. Increased gremlin-1 expression, and therefore suppressed...
Gremlin-1是骨形态发生蛋白(BMP)-2、-4和-7的一种高亲和力拮抗剂,与肿瘤的发生和发展有关。Gremlin-1的表达增加,从而抑制了...
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引用次数: 0
Ascending-Price Mechanism for General Multi-sided Markets 一般多边市场的价格上涨机制
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2023-10-01 DOI: 10.1007/978-3-030-82254-5_1
Dvir Gilor, Rica Gonen, Erel Segal-Halevi
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引用次数: 0
On the graph theory of majority illusions 论多数错觉的图论
IF 5.3 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2023-04-05 DOI: 10.48550/arXiv.2304.02258
M. Los, Z. Christoff, D. Grossi
The popularity of an opinion in one's direct circles is not necessarily a good indicator of its popularity in one's entire community. For instance, when confronted with a majority of opposing opinions in one's circles, one might get the impression that one belongs to a minority. From this perspective, network structure makes local information about global properties of the group potentially inaccurate. However, the way a social network is wired also determines what kind of information distortion can actually occur. In this paper, we discuss which classes of networks allow for a majority of agents to have the wrong impression about what the majority opinion is, that is, to be in a 'majority illusion'.
一种观点在一个人的直接圈子里的受欢迎程度并不一定能很好地表明它在整个社区的受欢迎程度。例如,当一个人在自己的圈子里面对大多数反对意见时,他可能会觉得自己属于少数人。从这个角度来看,网络结构使得关于群体整体属性的局部信息可能不准确。然而,社交网络的连接方式也决定了什么样的信息扭曲会真正发生。在本文中,我们讨论了哪些类别的网络允许大多数代理对大多数意见有错误的印象,即处于“多数错觉”中。
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引用次数: 0
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mAbs
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