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Cellular parabioisis as a senotherapeutic approach. 细胞异种共生作为一种老年治疗方法。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-26 DOI: 10.1016/bs.apha.2025.01.022
Sevide Sencan, Ilhan Onaran

Beyond cell death and differentiation, cell senescence is profoundly influenced by the social nature of cells, which is intricately linked to cell communication as a fundamental aspect of biological systems shaping both individual and collective cellular behaviors. As demonstrated by cellular parabiosis, sophisticated communication plays a critical role in maintaining tissue health and delaying age-related diseases. It is now widely accepted that signaling crosstalk, through both direct cell-to-cell interactions and indirect mechanisms, drives cell heterogeneity and cell state transitions, and that increasing cell heterogeneity with age significantly contributes to the development of age-related diseases. Aging is also associated with increased stem cell heterogeneity, leading to functional decline and decreased regenerative capacity. Heterochronic parabiosis and stem cell transplantation studies have indicated that impaired regeneration observed in aging organisms can be reversed by a youthful systemic environment that restores balanced signaling and rejuvenates aged cells. Multiple reports on autologous and allogeneic transplantation have confirmed the rejuvenative potential of hematopoietic stem cell and various tissue-derived mesenchymal stem cell transplants, providing insights into the potential of integrating cellular parabiosis-like approaches into regenerative medicine to combat aging and its associated pathologies. Scientific advances in these areas are now progressing to clinical trials. In this chapter, we first summarize the current knowledge of cellular parabiosis as a complex physiological process and emphasize heterogeneity in senescent cells. Subsequently, it reviews therapeutic approaches for treating aging-induced stem cell dysfunction as innovative solutions for addressing this issue. Finally, the chapter discusses future directions and challenges for senotherapeutic applications, highlighting their potential to advance the field of regenerative medicine.

除了细胞死亡和分化之外,细胞衰老还受到细胞社会性质的深刻影响,这与细胞通讯有着复杂的联系,细胞通讯是塑造个体和集体细胞行为的生物系统的一个基本方面。正如细胞异种共生所证明的那样,复杂的通讯在维持组织健康和延缓年龄相关疾病方面起着关键作用。现在人们普遍认为,通过直接的细胞间相互作用和间接机制,信号串扰驱动细胞异质性和细胞状态转变,并且随着年龄的增长,细胞异质性的增加显著促进了年龄相关疾病的发展。衰老还与干细胞异质性增加有关,导致功能下降和再生能力下降。异慢性异种共生和干细胞移植研究表明,在衰老生物体中观察到的再生受损可以通过年轻的系统环境来逆转,这种环境可以恢复平衡的信号并使衰老细胞恢复活力。关于自体和异体移植的多篇报道证实了造血干细胞和各种组织来源的间充质干细胞移植的恢复潜力,为将细胞异种共生样方法整合到再生医学中以对抗衰老及其相关病理提供了潜在的见解。这些领域的科学进展正在进入临床试验阶段。在本章中,我们首先总结了细胞异种共生作为一个复杂的生理过程的现有知识,并强调了衰老细胞的异质性。随后,它回顾了治疗衰老诱导的干细胞功能障碍的治疗方法,作为解决这一问题的创新解决方案。最后,本章讨论了老年治疗应用的未来方向和挑战,强调了它们在推进再生医学领域的潜力。
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引用次数: 0
Essential database resources for modern drug discovery. 现代药物发现的基本数据库资源。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-08 DOI: 10.1016/bs.apha.2025.01.002
Saloni Yadav, Sweta S Koka, Priya Jain, G N Darwhekar, Kuldeep Vinchurkar

In the fast-expanding field of drug discovery, researchers and pharmaceutical professionals require immediate access to critical database resources. This book chapter explains essential databases used in various stages of drug development, such as target selection, chemical screening, and clinical trial management. Databases including PubChem, ChEMBL, and Drug Bank, highlight their contributions to providing detailed chemical knowledge, biological activity data, and drug interaction profiles. Using powerful computer programs like AI and machine learning to combine data from these sources improves decision-making, speeds up time-to-market, and raises the chances of finding effective medicines. This book chapter signifies the importance of key databases, their uses, and how they integrate into the current drug discovery process.

在快速发展的药物发现领域,研究人员和制药专业人员需要立即访问关键的数据库资源。这本书的章节解释了在药物开发的各个阶段使用的基本数据库,如目标选择,化学筛选和临床试验管理。包括PubChem, ChEMBL和Drug Bank在内的数据库突出了它们在提供详细的化学知识,生物活性数据和药物相互作用概况方面的贡献。使用强大的计算机程序,如人工智能和机器学习,将来自这些来源的数据结合起来,可以改善决策,加快上市时间,并提高发现有效药物的机会。本章标志着关键数据库的重要性,他们的用途,以及他们如何融入当前的药物发现过程。
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引用次数: 0
Geropharmacology and gastrointestinal surgery. 老年药理学和胃肠外科。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-04-23 DOI: 10.1016/bs.apha.2025.04.001
Anıl Orhan, Süleyman Demiryas

Operating on elderly patients has always been a risky task for surgeons. They are not only frail and susceptible to operative complications, but they also require meticulous preparation before their surgery to secure the optimal result. Unfortunately, most of these patients have comorbidities which increase the challenge. Even though the medication they use is helpful to control their diseases, it can change the plan of the surgery and its outcome dramatically. Postoperative medications and treatment also have a unique importance; underestimating them may lead to catastrophic results. Restarting routine medications of patients with multiple comorbidities as quickly as we can when we perform a successful surgery is also crucially important to control the associated diseases. This chapter will focus on how senility influences our surgical practices; how pharmaceutical agents might affect the survivability of elderly patients undergoing gastrointestinal surgery, and the potential roles of several senotherapeutics in gastrointestinal disorders.

对外科医生来说,给老年病人做手术一直是一项危险的任务。他们不仅身体虚弱,易受手术并发症的影响,而且在手术前也需要精心准备以确保最佳结果。不幸的是,这些患者中的大多数都有合并症,这增加了挑战。尽管他们使用的药物有助于控制他们的疾病,但它可能会极大地改变手术计划和结果。术后药物和治疗也具有独特的重要性;低估它们可能会导致灾难性的后果。当我们进行成功的手术时,尽快重新开始对患有多种合并症的患者进行常规药物治疗对于控制相关疾病也至关重要。本章将集中讨论衰老如何影响我们的外科实践;药物如何影响接受胃肠手术的老年患者的生存,以及几种老年治疗药物在胃肠疾病中的潜在作用。
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引用次数: 0
High-throughput computational screening for lead discovery and development. 用于铅发现和开发的高通量计算筛选。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-06 DOI: 10.1016/bs.apha.2025.01.001
Neelufar Shama Shaik, Harika Balya

High-throughput computational screening (HTCS) has revolutionized the drug discovery process by enabling the rapid identification and optimization of potential lead compounds. Leveraging the power of advanced algorithms, machine learning, and molecular simulations, HTCS facilitates the efficient exploration of vast chemical spaces, significantly accelerating early-stage drug discovery. The time, cost, and labor in the case of traditional experimental approaches are reduced by the ability to virtually screen millions of compounds for biological activity. This paradigm shift is also facilitated by the combination of omics data, genomics, proteomics, and metabolomics in computational pipelines, allowing detailed understanding of complex biological systems and paving the way toward personalized medicine. Core methods such as molecular docking, QSAR models, and pharmacophore modeling are the foundation of HTCS, providing predictive information on molecular interactions and binding affinities. Machine learning and artificial intelligence are augmenting these tools with more precise prediction accuracy and revealing rich patterns embedded in molecular data. With the development of HTCS, more and more, computational methods are used as a powerful tool in de novo drug design, in which computational tools produce a novel chemical entity that shows optimal fit to the target. Despite its transformative potential, HTCS faces challenges related to data quality, model validation, and the need for robust regulatory frameworks. Nevertheless, as AI-driven approaches, quantum computing, and big data analytics continue to evolve, HTCS is set to become a cornerstone of modern drug discovery, reshaping the field with smarter, more personalized therapeutic strategies that address complex diseases with precision and efficiency.

高通量计算筛选(HTCS)通过快速识别和优化潜在先导化合物,彻底改变了药物发现过程。利用先进的算法、机器学习和分子模拟的力量,HTCS促进了对广阔化学空间的有效探索,显著加快了早期药物的发现。在传统的实验方法中,时间、成本和劳动力由于能够筛选数百万种化合物的生物活性而减少。组学数据、基因组学、蛋白质组学和代谢组学在计算管道中的结合也促进了这种范式转变,使人们能够详细了解复杂的生物系统,并为个性化医疗铺平道路。分子对接、QSAR模型和药效团建模等核心方法是HTCS的基础,提供了分子相互作用和结合亲和力的预测信息。机器学习和人工智能正在通过更精确的预测准确性和揭示嵌入分子数据中的丰富模式来增强这些工具。随着HTCS技术的发展,计算方法越来越多地被用作新药设计的有力工具,计算工具产生最适合靶标的新型化学实体。尽管具有变革潜力,但HTCS面临着与数据质量、模型验证和强大监管框架需求相关的挑战。然而,随着人工智能驱动的方法、量子计算和大数据分析的不断发展,HTCS将成为现代药物发现的基石,以更智能、更个性化的治疗策略重塑该领域,以精确和高效的方式解决复杂的疾病。
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引用次数: 0
Future prospective of AI in drug discovery. 人工智能在药物发现中的未来展望。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-06 DOI: 10.1016/bs.apha.2025.01.009
Mithun Bhowmick, Sourajyoti Goswami, Pratibha Bhowmick, Santanu Hait, Dipayan Rath, Sabina Yasmin

Drug discovery and development is very expensive and long with an inferior success rate. It is quite inefficient and costly due to huge R&D costs and lower productivity in pharmaceutical industries, to discover effective drugs and their development. AI can revolutionize the history of drug discovery and development because it will solve all these problems. AI can identify some promising drug candidates, reduce costs, and increase precision. AI algorithms analyze large datasets, predict molecular interactions, and help optimize the design of clinical trials, making the process of drug discovery and biomedical research much more efficient. By combining cutting-edge computation with more conventional pharmaceutical strategy, AI aids in expediting the process of therapeutics development. This chapter is an investigation of the core reasons behind lower approval rates of new drugs, the potential scope of AI to improve the drug discovery and development scenario, and the practical applications in the field. This article will further explore future opportunities, key methodologies, and challenges in the implementation of AI in pharmaceutical research.

药物的发现和开发既昂贵又耗时,而且成功率很低。由于制药行业的研发成本巨大,生产效率较低,发现和开发有效药物的效率低下,成本高昂。人工智能可以彻底改变药物发现和开发的历史,因为它将解决所有这些问题。人工智能可以识别一些有前途的候选药物,降低成本,提高精度。人工智能算法分析大型数据集,预测分子相互作用,并帮助优化临床试验设计,使药物发现和生物医学研究过程更加高效。通过将尖端计算与更传统的药物策略相结合,人工智能有助于加快治疗方法的开发过程。本章调查了新药批准率较低背后的核心原因,人工智能改善药物发现和开发场景的潜在范围,以及该领域的实际应用。本文将进一步探讨在药物研究中实施人工智能的未来机遇、关键方法和挑战。
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引用次数: 0
Molecular dynamics simulations: Insights into protein and protein ligand interactions. 分子动力学模拟:洞察蛋白质和蛋白质配体相互作用。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-06 DOI: 10.1016/bs.apha.2025.01.007
Sonam Grewal, Geeta Deswal, Ajmer Singh Grewal, Kumar Guarve

Molecular dynamics (MD) simulations are a powerful tool for studying biomolecular systems, offering in-depth insights into the dynamic behaviors of proteins and their interactions with ligands. This chapter delves into the fundamental principles and methodologies of MD simulations, exploring how they contribute to our understanding of protein structures, conformational changes, and the mechanisms underlying protein-ligand interactions. We discuss the computational techniques, force fields, and algorithms that drive MD simulations, highlighting their applications in drug discovery and design. Through case studies and practical examples, we illustrate the capabilities and limitations of MD simulations, emphasizing their role in predicting binding affinities, elucidating binding pathways, and optimizing lead compounds. This chapter offers a thorough understanding of how MD simulations can be leveraged to advance the study of protein-ligand interactions.

分子动力学(MD)模拟是研究生物分子系统的有力工具,可以深入了解蛋白质的动态行为及其与配体的相互作用。本章深入研究了MD模拟的基本原理和方法,探索它们如何有助于我们理解蛋白质结构,构象变化以及蛋白质-配体相互作用的机制。我们讨论了驱动MD模拟的计算技术、力场和算法,重点介绍了它们在药物发现和设计中的应用。通过案例研究和实际例子,我们说明了MD模拟的能力和局限性,强调了它们在预测结合亲和性、阐明结合途径和优化先导化合物方面的作用。本章提供了一个透彻的理解如何MD模拟可以利用来推进蛋白质-配体相互作用的研究。
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引用次数: 0
Advanced molecular modeling of proteins: Methods, breakthroughs, and future prospects. 先进的蛋白质分子建模:方法、突破和未来展望。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-28 DOI: 10.1016/bs.apha.2025.02.005
Vijay Kumar Nuthakki, Rakesh Barik, Sharanabassappa B Gangashetty, Gatadi Srikanth

The contemporary advancements in molecular modeling of proteins have significantly enhanced our comprehension of biological processes and the functional roles of proteins on a global scale. The application of advanced methodologies, including homology modeling, molecular dynamics simulations, and quantum mechanics/molecular mechanics strategies, has empowered numerous researchers to forecast the behavior of protein macromolecules, elucidate drug-protein interactions, and develop drugs with enhanced precision. This chapter elucidates the advent of deep learning algorithms such as AlphaFold, a notable advancement that has significantly improved the precision of intricate protein structure predictions. The recent advancements have significantly enhanced the precision of protein predictions and expedited drug discovery and development processes. Integrating approaches like multi-scale modeling and hybrid methods incorporating reliable experimental data is anticipated to revolutionize and offer more significant implications for precision medicine and targeted treatments.

蛋白质分子建模的当代进步极大地增强了我们对全球范围内的生物过程和蛋白质功能作用的理解。同源建模、分子动力学模拟和量子力学/分子力学策略等先进方法的应用,使众多研究人员能够预测蛋白质大分子的行为,阐明药物与蛋白质之间的相互作用,并更精确地开发药物。本章阐述了 AlphaFold 等深度学习算法的出现,这一显著进步大大提高了复杂蛋白质结构预测的精度。最近的进步大大提高了蛋白质预测的精度,加快了药物发现和开发进程。将多尺度建模和混合方法等方法与可靠的实验数据相结合,预计将为精准医学和靶向治疗带来革命性的变化和更重大的影响。
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引用次数: 0
Pharmacological frontiers in senescence: Transforming senescence with drug repurposing. 衰老的药理学前沿:用药物再利用改造衰老。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-06-23 DOI: 10.1016/bs.apha.2025.02.010
Andleeb Shahzadi, Sibel Ozyazgan, Ufuk Çakatay

Repurposing conventional drugs as senotherapeutics offers a pragmatic and efficient approach to targeting cellular senescence, a key driver of aging-related diseases. Instead of relying solely on novel drug development, repurposing allows for the use of existing drugs with well-characterized pharmacokinetics, safety profiles, and clinical data, thereby accelerating their translation into senescence-targeted interventions. This chapter provides a comprehensive classification of senotherapeutics into senolytics, senomorphics, senoblockers, and senoreversers, detailing their mechanisms of action, molecular targets, and therapeutic applications. By categorizing these conventional agents based on their functional roles, this chapter presents a structured framework for understanding the pharmacological landscape of senotherapeutics. Additionally, this chapter discusses tissue-specific targeting, optimizing the dosing strategy to enhance the precision and safety of repurposed senotherapeutics. This chapter offers a systematic evaluation of drug repurposing, bridges the gap between preclinical and clinical applications, addressing both opportunities and challenges in repurposing the drugs. Eventually, this approach holds the potential to extend healthspan, mitigate age-related dysfunction, and provide more accessible and effective therapeutic options for disorders associated with cellular senescence.

将传统药物作为衰老疗法提供了一种实用而有效的方法来靶向细胞衰老,这是衰老相关疾病的关键驱动因素。而不是仅仅依赖于新药开发,再利用允许使用具有良好特征的药代动力学,安全性概况和临床数据的现有药物,从而加速其转化为针对衰老的干预措施。本章提供了老年治疗药物的全面分类,分为老年药物、senomorphics、senblocker和senoreversers,详细介绍了它们的作用机制、分子靶点和治疗应用。通过根据功能角色对这些传统药物进行分类,本章为理解老年治疗药物的药理学景观提供了一个结构化的框架。此外,本章还讨论了组织特异性靶向,优化给药策略,以提高靶向性老年治疗药物的准确性和安全性。本章提供了药物再利用的系统评估,弥合了临床前和临床应用之间的差距,解决了药物再利用的机遇和挑战。最终,这种方法有可能延长健康寿命,减轻与年龄相关的功能障碍,并为与细胞衰老相关的疾病提供更容易获得和有效的治疗选择。
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引用次数: 0
ADMET tools in the digital era: Applications and limitations. ADMET工具在数字时代:应用和限制。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-12 DOI: 10.1016/bs.apha.2025.01.004
Sonali S Shinde, Prabhanjan S Giram, Pravin S Wakte, Sachin S Bhusari

The high rate of medication failures poses a significant challenge for the pharmaceutical sector. Selecting appropriate data from experiments for ADMET (absorption, distribution, metabolism, excretion, and toxicity) prediction and applying it effectively in the context of physiological characteristics is difficult. Currently, ADMET prediction is conducted early in the drug design process to filter out molecules with weak pharmacokinetic properties. Numerous ADMET models for prediction have been designed using computational methods. Verified ADMET datasets have been determined through experiments, utilizing key classifying factors and descriptors to develop in silico approaches. This chapter discusses the relevance of ADMET evaluation in drug design, methodologies for model creation, available ADMET predictive tools, and the limitations of these predicted models.

药物治疗的高失败率给制药行业带来了巨大挑战。从实验中选择适当的数据进行 ADMET(吸收、分布、代谢、排泄和毒性)预测,并将其有效地应用于生理特点的研究是非常困难的。目前,ADMET 预测是在药物设计过程的早期进行的,目的是筛选出药代动力学特性较弱的分子。利用计算方法设计了许多 ADMET 预测模型。通过实验确定了经过验证的 ADMET 数据集,利用关键分类因子和描述因子开发了硅学方法。本章将讨论 ADMET 评估在药物设计中的相关性、创建模型的方法、可用的 ADMET 预测工具以及这些预测模型的局限性。
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引用次数: 0
Deep learning: A game changer in drug design and development. 深度学习:改变药物设计和开发的游戏规则。
Q1 Pharmacology, Toxicology and Pharmaceutics Pub Date : 2025-01-01 Epub Date: 2025-02-06 DOI: 10.1016/bs.apha.2025.01.008
Sushanta Kumar Das, Rahul Mishra, Amit Samanta, Dibyendu Shil, Saumendu Deb Roy

The lengthy and costly drug discovery process is transformed by deep learning, a subfield of artificial intelligence. Deep learning technologies expedite the procedure, increasing treatment success rates and speeding life-saving procedures. Deep learning stands out in target identification and lead selection. Deep learning greatly accelerates initial stage by analyzing large datasets of biological data to identify possible therapeutic targets and rank targeted drug molecules with desired features. Predicting possible adverse effects is another significant challenge. Deep learning offers prompt and efficient assistance with toxicology prediction in a very short time, deep learning algorithms can forecast a new drug's possible harm. This enables to concentrate on safer alternatives and steer clear of late-stage failures brought on by unanticipated toxicity. Deep learning unlocks the possibility of drug repurposing; by examining currently available medications, it is possible to find whole new therapeutic uses. This method speeds up development of diseases that were previously incurable. De novo drug discovery is made possible by deep learning when combined with sophisticated computational modeling, it can create completely new medications from the ground. Deep learning can recommend and direct towards new drug candidates with high binding affinities and intended therapeutic effects by examining molecular structures of disease targets. This provides focused and personalized medication. Lastly, drug characteristics can be optimized with aid of deep learning. Researchers can create medications with higher bioavailability and fewer toxicity by forecasting drug pharmacokinetics. In conclusion, deep learning promises to accelerate drug development, reduce costs, and ultimately save lives.

人工智能的一个子领域——深度学习改变了漫长而昂贵的药物发现过程。深度学习技术加快了治疗过程,提高了治疗成功率,加快了挽救生命的过程。深度学习在目标识别和领导选择中脱颖而出。深度学习通过分析大型生物数据集来识别可能的治疗靶点,并根据所需的特征对靶向药物分子进行排序,从而大大加快了初始阶段。预测可能的副作用是另一个重大挑战。深度学习在很短的时间内为毒理学预测提供了快速有效的帮助,深度学习算法可以预测新药可能的危害。这使得人们能够专注于更安全的替代方案,并避免因意外毒性而导致的后期失败。深度学习开启了药物再利用的可能性;通过检查目前可用的药物,有可能发现全新的治疗用途。这种方法加速了以前无法治愈的疾病的发展。通过深度学习与复杂的计算模型相结合,可以从头开始创造全新的药物。深度学习可以通过检查疾病靶点的分子结构来推荐和指导具有高结合亲和力和预期治疗效果的新候选药物。这提供了集中和个性化的治疗。最后,药物特性可以借助深度学习进行优化。研究人员可以通过预测药物的药代动力学来创造具有更高生物利用度和更低毒性的药物。总之,深度学习有望加速药物开发,降低成本,并最终拯救生命。
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引用次数: 0
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Advances in pharmacology
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