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Peptide cheminformatics tools: making computational tasks accessible in peptide drug discovery 多肽化学信息学工具:使多肽药物发现的计算任务可访问。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-21 DOI: 10.1016/j.drudis.2026.104612
Vanessa Erckes , Massina Abderrahmane , Maud Jusot , Christian Steuer , Rodrigo Ochoa
Peptides are versatile molecules with a growing relevance in addressing previously untreatable and complex diseases and targets. Computational methods offer powerful strategies to streamline peptide drug discovery by accelerating design–test cycles and guiding efforts toward promising candidates. The application of such tools requires specialized knowledge in informatics, programming, and statistics, with a growing number of computational tools and frameworks becoming available. In this review, we provide an overview of current computational approaches in peptide research, covering different phases of the computational pipeline, such as representation, similarity assessments, machine/deep learning (ML/DL) models, and peptide design. We further highlight available peptide cheminformatics tools based on their key features to facilitate their integration into peptide drug discovery pipelines.
多肽是一种多用途分子,在解决以前无法治疗的复杂疾病和目标方面具有越来越大的相关性。计算方法通过加速设计测试周期和指导有希望的候选药物的努力,为简化肽药物发现提供了强大的策略。这些工具的应用需要信息学、编程和统计学方面的专业知识,并且越来越多的计算工具和框架变得可用。在这篇综述中,我们概述了当前多肽研究中的计算方法,涵盖了计算管道的不同阶段,如表示、相似性评估、机器/深度学习(ML/DL)模型和多肽设计。我们进一步强调基于其关键特征的可用肽信息学工具,以促进其整合到肽药物发现管道中。
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引用次数: 0
Achieving durable psoriasis remission with nucleic acid therapeutics. 实现持久银屑病缓解与核酸治疗。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-21 DOI: 10.1016/j.drudis.2026.104609
Hanxue Zhou, Jiaye Lu, Bei Yin, Quangang Zhu, Zhongjian Chen

Psoriasis is a chronic immune-mediated inflammatory disorder characterized by immune imbalance and keratinocyte hyperproliferation. Highly effective immunomodulators, with well-established safety profiles, have substantially transformed disease management, achieving durable remission in many patients and reshaping current therapeutic paradigms. However, several unmet clinical needs have driven increasing interest in next-generation nucleic-acid-based therapies, including siRNA, miRNA and therapeutic oligonucleotides, which enable precise and modular gene-level modulation. In this review, their therapeutic potential is summarized and key challenges - such as immunogenicity, off-target effects, delivery barriers and manufacturing scalability - are critically examined. Recent advances in biomaterials that facilitate safer and more-durable gene modulation are further summarized; and potential opportunities for future personalized strategies that complement existing biologic therapies are discussed.

银屑病是一种以免疫失衡和角化细胞增生为特征的慢性免疫介导炎性疾病。高效的免疫调节剂,具有良好的安全性,极大地改变了疾病管理,在许多患者中实现了持久的缓解,并重塑了当前的治疗模式。然而,一些未满足的临床需求促使人们对下一代基于核酸的疗法越来越感兴趣,包括siRNA、miRNA和治疗性寡核苷酸,这些疗法可以实现精确和模块化的基因水平调节。在这篇综述中,总结了它们的治疗潜力,并对关键挑战——如免疫原性、脱靶效应、递送障碍和制造可扩展性——进行了严格的审查。进一步总结了促进更安全和更持久的基因调控的生物材料的最新进展;并讨论了补充现有生物疗法的未来个性化策略的潜在机会。
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引用次数: 0
2025 In Review: Trends in Pharmaceutical Innovation. 2025年回顾:制药创新趋势。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-21 DOI: 10.1016/j.drudis.2026.104610
Michael S Kinch, Zachary Kraft, Tyler Schwartz
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引用次数: 0
Unfairly forgotten deconvolution methods of combinatorial libraries 不公平地被遗忘的组合库的反卷积方法。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-19 DOI: 10.1016/j.drudis.2026.104606
Árpád Furka
Since the introduction of split and pool synthesis, making it possible to create even billion-member combinatorial libraries, two deconvolution possibilities have been extensively used: the one-bead one-compound (OBOC) and the DNA-encoded methods. The originally available back search screening and the possibilities offered by the later-developed omission peptide libraries and the positional scanning have long been forgotten. Here, I compared the advantages and disadvantages of the above-mentioned methods, emphasizing the advantage of screening free dissolved molecules in the back search method.
自从引入分裂和池合成(split and pool synthesis),使创建甚至十亿成员的组合文库成为可能以来,两种反卷积方法被广泛使用:一头一化合物(one- head one-compound, OBOC)和dna编码方法。最初可用的反向搜索筛选和后来开发的遗漏肽库和位置扫描提供的可能性早已被遗忘。在这里,我比较了上述方法的优缺点,强调了反向搜索法在筛选游离溶解分子方面的优势。
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引用次数: 0
Regulators must intervene to drive up the quality and impact of patient safety reporting. 监管机构必须进行干预,以提高患者安全报告的质量和影响。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-19 DOI: 10.1016/j.drudis.2026.104607
Daniel O'Keeffe

The ambitions of Patient Safety and ongoing Pharmacovigilance are quite clear - making drugs and therapies as safe as they can be, so that they deliver ever better outcomes. And yet this entire endeavour is threatened by the enormous complexity in capturing meaningful, high-quality insights and acting on them swiftly. Today, tech vendors are promising the world with AI. Leave the chaos as it is, and let AI make sense of it, they say. But it is not that simple. Until regulators insist that better data is captured at source, and until the entire industry understands that AI is not a simple fix to the complexity problem, Safety functions and their patients will be no better off. In this hard-hitting article, illustrated by clear examples of what's still going wrong, Qinecsa's Daniel O'Keeffe explains why it's time for a major shift in approach to the problem of fragmented patient safety data. Drawing on the persisting challenges affecting pharma companies today, he will explain.

患者安全和持续药物警戒的目标非常明确——使药物和治疗尽可能安全,从而提供更好的结果。然而,获取有意义的、高质量的见解并迅速采取行动的巨大复杂性威胁着这整个努力。如今,技术供应商正用人工智能向世界承诺。他们说,让混乱保持原样,让人工智能来理解它。但事情并没有那么简单。除非监管机构坚持从源头获取更好的数据,除非整个行业都明白人工智能不是解决复杂问题的简单方法,否则安全功能和他们的病人不会得到改善。在这篇犀利的文章中,Qinecsa的Daniel O'Keeffe解释了为什么现在是时候对支离破碎的患者安全数据问题进行重大转变。他将解释当今影响制药公司的持续挑战。
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引用次数: 0
Democratising real-world drug discovery through agentic AI 通过代理人工智能实现现实世界药物发现的民主化。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-16 DOI: 10.1016/j.drudis.2026.104605
Jiazhen He , Helen Lai , Lakshidaa Saigiridharan , Gian Marco Ghiandoni , Kinga Jenei , Umur Gokalp , Ajša Nuković , Ola Engkvist , Jon Paul Janet , Samuel Genheden
Agentic systems that are based on large language models (LLMs) have emerged as promising tools in the chemistry domain over the past few years. Early examples included work on CoScientist, Chemcrow, and LLM-RDF, which showcased the potential of agentic systems to assist in chemical research, in the orchestration of cheminformatics tools, and in synthetic reaction development. Despite this, the current literature lacks examples of the real-world adoption of such systems in drug discovery. We present such an example by describing our work on an agentic system called ChatInvent, which has been integrated into the discovery pipeline at AstraZeneca to aid in molecular design and synthesis planning. We discuss how the system evolved from a proof-of-concept single agent into an extensible, robust, and scalable multi-agent architecture with a graphical user interface. We emphasize the lessons learnt and the challenges that persist as we continue to work on this project, and share our perspectives on the future of agentic systems in our domain.
在过去的几年里,基于大型语言模型(llm)的代理系统已经成为化学领域中很有前途的工具。早期的例子包括CoScientist、Chemcrow和LLM-RDF,它们展示了代理系统在化学研究、化学信息学工具的编排和合成反应开发方面的潜力。尽管如此,目前的文献缺乏在药物发现中采用这种系统的实际例子。我们通过描述我们在一个名为ChatInvent的代理系统上的工作来展示这样一个例子,该系统已被整合到阿斯利康的发现管道中,以帮助进行分子设计和合成计划。我们讨论了系统如何从概念验证的单一代理演变为具有图形用户界面的可扩展、健壮和可伸缩的多代理体系结构。我们强调在继续开展这一项目的过程中所吸取的教训和面临的挑战,并分享我们对代理系统在我们领域的未来的看法。
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引用次数: 0
Next-generation lung-cancer-on-a-chip: Toward personalized therapy, AI, and CRISPR-driven models 下一代芯片肺癌:走向个性化治疗、人工智能和crispr驱动模型。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-14 DOI: 10.1016/j.drudis.2026.104604
Nanziba Sharmin Hossain , Nishat Tasnim , Jannatul Ferdoush , Ayan Roy , Suvash C. Saha , Ayan Saha
Lung-cancer-on-a-chip (LCOC) technologies have advanced rapidly, yet most models evaluate mechanical strain, patient-derived tumors, multi-organ interactions, artificial intelligence (AI) analytics, and clustered regularly interspaced short palindromic repeats (CRISPR) editing in isolation. In this review, we uniquely integrate these emerging components into a unified framework centered on the breathing LCOC. We highlight how embedding patient-derived lung tumor fragments into cyclically stretched microenvironments, then linking them to downstream organ compartments, enables patient-specific mapping of metastatic routes under physiologically relevant mechanics. We further describe how continuous high-resolution imaging from these platforms can feed AI pipelines for automated drug–response prediction and metastatic trajectory simulation, and how on-chip CRISPR editing enables accurate investigation of metastatic drivers within dynamic, strain-modulated microenvironments. By synthesizing these technologies, we outline a next-generation, personalized multi-organ-on-chip architecture capable of predicting individual disease progression without direct patient risk. We also address practical barriers, including tumor fragility under strain, imaging domain shift, and gene-editing delivery challenges, and how to overcome such barriers.
肺癌芯片(LCOC)技术发展迅速,但大多数模型评估机械应变、患者源性肿瘤、多器官相互作用、人工智能(AI)分析和聚类定期间隔短回文重复(CRISPR)编辑。在本文中,我们将这些新兴组件独特地集成到以呼吸式LCOC为中心的统一框架中。我们强调如何将患者来源的肺肿瘤片段嵌入到周期性拉伸的微环境中,然后将它们连接到下游器官室,从而在生理相关力学下实现患者特异性转移途径的映射。我们进一步描述了这些平台的连续高分辨率成像如何为人工智能管道提供自动化药物反应预测和转移轨迹模拟,以及芯片上的CRISPR编辑如何能够在动态、菌株调制的微环境中准确研究转移驱动因素。通过综合这些技术,我们概述了下一代个性化的多器官芯片架构,能够预测个体疾病进展,而不会对患者造成直接风险。我们还解决了实际的障碍,包括肿瘤在应变下的脆弱性、成像域转移和基因编辑传递的挑战,以及如何克服这些障碍。
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引用次数: 0
Intrinsically disordered proteins and liquid–liquid phase separation in drug discovery 内在无序蛋白与药物发现中的液-液相分离。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-14 DOI: 10.1016/j.drudis.2026.104603
Nilakshi Deka , Niharika Nag , Timir Tripathi
Intrinsically disordered proteins (IDPs) and their involvement in liquid–liquid phase separation (LLPS) have reshaped our understanding of how cells organize biochemical reactions in space and time. Unlike structured proteins, IDPs populate highly dynamic conformational ensembles that promote weak, multivalent interactions and enable the formation of biomolecular condensates (BCs). When these phase-separation processes become dysregulated, they often contribute to diseases, including cancer, neurodegeneration, viral infection, and certain metabolic disorders. This emerging biology presents both conceptual challenges and promising opportunities for drug discovery. Therapeutic strategies now extend beyond classical small molecules to include physicochemical modulators, post-translational modification mimetics, peptides, nanobodies, and targeted protein degradation tools such as PROTACs (proteolysis-targeting chimeras). In parallel, artificial intelligence and advanced computational methods are beginning to illuminate the complex conformational landscapes of IDPs and provide new ways to predict, screen, and optimize modulators of condensate behavior. However, major obstacles remain, including the intrinsic heterogeneity of disordered regions, context-dependent condensate properties, and variability across cell types and patients. Addressing these hurdles will require integrated advances in biosensors, high-throughput screening, quantitative imaging, and delivery technologies. Together, these developments are paving the way for a new generation of targeted therapies that exploit or correct the phase behavior of IDPs.
内在无序蛋白(IDPs)及其在液-液相分离(LLPS)中的作用重塑了我们对细胞如何在空间和时间上组织生化反应的理解。与结构蛋白不同,IDPs形成高度动态的构象集合,促进弱的多价相互作用,并使生物分子凝聚物(bc)的形成成为可能。当这些相分离过程失调时,它们通常会导致疾病,包括癌症、神经变性、病毒感染和某些代谢紊乱。这种新兴的生物学为药物发现提出了概念上的挑战和有希望的机会。治疗策略现在已经超越了经典的小分子,包括物理化学调节剂、翻译后修饰模拟物、多肽、纳米体和靶向蛋白质降解工具,如PROTACs(靶向蛋白质水解嵌合体)。与此同时,人工智能和先进的计算方法开始阐明IDPs的复杂构象景观,并提供预测、筛选和优化凝析油行为调制器的新方法。然而,主要的障碍仍然存在,包括无序区域的内在异质性,上下文依赖的凝聚特性,以及不同细胞类型和患者的可变性。解决这些障碍需要生物传感器、高通量筛选、定量成像和输送技术的综合进步。总之,这些发展为新一代靶向治疗铺平了道路,这些治疗可以利用或纠正境内流离失所者的阶段性行为。
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引用次数: 0
LYTACs and other extracellular targeted protein degradation TACnologies: guiding principles and potential clinical prospects LYTACs和其他细胞外靶向蛋白降解技术:指导原则和潜在的临床前景。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-12 DOI: 10.1016/j.drudis.2026.104601
Björn Niebel , Wanyin Chen , Kaori Mukai , Christophe Henry
Lysosome-targeting chimeras (LYTACs) have emerged as a powerful modality in the field of extracellular targeted protein degradation (eTPD). The proximity-inducing mode of action of LYTACs can be applied to a growing number of lysosome-targeting receptors (LTRs) and membrane-bound E3 ligases to degrade extracellular proteins. In this review, we highlight preceding eTPD approaches and discuss in depth the plethora of newly identified LTRs that can be exploited in a LYTAC molecule. To provide guidance in the fast-growing LYTAC field, we elaborate on parameters to assess the preclinical validation of the various TACnologies, highlight opportunities for engineering catalytic LYTACs, and finish with pharmacokinetic (PK) considerations.
溶酶体靶向嵌合体(LYTACs)已成为细胞外靶向蛋白降解(eTPD)领域的一种强有力的模式。lytac的接近诱导作用模式可以应用于越来越多的溶酶体靶向受体(LTRs)和膜结合E3连接酶来降解细胞外蛋白。在这篇综述中,我们重点介绍了之前的eTPD方法,并深入讨论了可以在LYTAC分子中利用的大量新发现的ltr。为了在快速发展的LYTAC领域提供指导,我们详细阐述了评估各种技术临床前验证的参数,强调了工程催化LYTAC的机会,并完成了药代动力学(PK)考虑。
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引用次数: 0
Mapping ligands for MT1/MT2 and 5-HT2C receptors: Chemotypes, SAR, and polypharmacology. MT1/MT2和5-HT2C受体的定位配体:化学型,SAR和多药理学。
IF 7.5 2区 医学 Q1 PHARMACOLOGY & PHARMACY Pub Date : 2026-01-08 DOI: 10.1016/j.drudis.2026.104600
Alban Lepailleur, Damien Geslin, Johanna Giovannini, Bertrand Cuissart, Jean-Luc Lamotte, Ronan Bureau

Understanding ligand selectivity and efficacy at melatonin (MT1, MT2) and serotonin (5-HT2C) receptors remains a key challenge in central nervous system (CNS) drug discovery. Ligands combining MT1/MT2 agonism with 5-HT2C antagonism are of therapeutic relevance in depression and circadian rhythm disorders. This review provides a comprehensive overview of ligands reported for these receptors in ChEMBL, with an emphasis on compounds evaluated across multiple targets. A pharmacophore-based approach was applied to group ligands by shared features, revealing pharmacomodulations influencing receptor selectivity and polypharmacology. Together, these insights can inspire the rational design of selective or polypharmacological ligands, offering new opportunities for multitarget drug discovery.

了解褪黑激素(MT1, MT2)和5-羟色胺(5-HT2C)受体的配体选择性和有效性仍然是中枢神经系统(CNS)药物发现的关键挑战。结合MT1/MT2激动剂和5-HT2C拮抗剂的配体在抑郁症和昼夜节律障碍中具有治疗意义。这篇综述提供了ChEMBL中这些受体的配体的全面概述,重点是跨多个靶点评估的化合物。基于药物团的方法应用于配体的共同特征分组,揭示影响受体选择性和多药理学的药物调节。总之,这些见解可以启发选择性或多药理学配体的合理设计,为多靶点药物的发现提供新的机会。
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引用次数: 0
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Drug Discovery Today
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