Drug Discovery Today: Technologies最新文献

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Localization of Organelle Proteins by Isotope Tagging: Current status and potential applications in drug discovery research 同位素标记在细胞器蛋白定位中的应用现状及在药物发现研究中的潜在应用
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.06.003
Mohamed A.W. Elzek , Josie A. Christopher , Lisa M. Breckels , Kathryn S. Lilley
{"title":"Localization of Organelle Proteins by Isotope Tagging: Current status and potential applications in drug discovery research","authors":"Mohamed A.W. Elzek ,&nbsp;Josie A. Christopher ,&nbsp;Lisa M. Breckels ,&nbsp;Kathryn S. Lilley","doi":"10.1016/j.ddtec.2021.06.003","DOIUrl":"10.1016/j.ddtec.2021.06.003","url":null,"abstract":"<div><p><span>Spatial proteomics has provided important insights into the relationship between protein function and subcellular location. Localization of Organelle Proteins by Isotope Tagging (LOPIT) and its variants are proteome-wide techniques, not matched in scale by microscopy-based or proximity tagging-based techniques, allowing holistic mapping of protein subcellular location and re-localization events downstream of cellular perturbations. LOPIT can be a powerful and versatile tool in </span>drug discovery<span> for unlocking important information on disease pathophysiology, drug mechanism of action, and off-target toxicity screenings. Here, we discuss technical concepts of LOPIT with its potential applications in drug discovery and development research.</span></p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.ddtec.2021.06.003","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39587151","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 4
Editorial for the role(s) of MS in drug research and development MS在药物研究和开发中的作用
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.10.007
Maarten Honing
{"title":"Editorial for the role(s) of MS in drug research and development","authors":"Maarten Honing","doi":"10.1016/j.ddtec.2021.10.007","DOIUrl":"10.1016/j.ddtec.2021.10.007","url":null,"abstract":"","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39820742","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Progress in Free Energy Perturbation: Options for Evolving Fragments 自由能摄动的进展:演化碎片的选择
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.10.001
Lorena Zara, Nina-Louisa Efrém, Jacqueline E. van Muijlwijk-Koezen, Iwan J.P. de Esch, Barbara Zarzycka
{"title":"Progress in Free Energy Perturbation: Options for Evolving Fragments","authors":"Lorena Zara,&nbsp;Nina-Louisa Efrém,&nbsp;Jacqueline E. van Muijlwijk-Koezen,&nbsp;Iwan J.P. de Esch,&nbsp;Barbara Zarzycka","doi":"10.1016/j.ddtec.2021.10.001","DOIUrl":"10.1016/j.ddtec.2021.10.001","url":null,"abstract":"<div><p><span>One of the remaining bottlenecks in fragment-based drug design (FBDD) is the initial exploration and optimization of the identified hit fragments. There is a growing interest in computational approaches that can guide these efforts by predicting the </span>binding affinity of newly designed analogues. Among others, alchemical free energy (AFE) calculations promise high accuracy at a computational cost that allows their application during lead optimization campaigns. In this review, we discuss how AFE could have a strong impact in fragment evolution, and we raise awareness on the challenges that could be encountered applying this methodology in FBDD studies.</p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39732465","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
A technical overview of supercritical fluid chromatography-mass spectrometry (SFC-MS) and its recent applications in pharmaceutical research and development 超临界流体色谱-质谱(SFC-MS)技术综述及其在药物研发中的最新应用
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.10.002
Liuxi Chen, Brian Dean, Xiaorong Liang
{"title":"A technical overview of supercritical fluid chromatography-mass spectrometry (SFC-MS) and its recent applications in pharmaceutical research and development","authors":"Liuxi Chen,&nbsp;Brian Dean,&nbsp;Xiaorong Liang","doi":"10.1016/j.ddtec.2021.10.002","DOIUrl":"10.1016/j.ddtec.2021.10.002","url":null,"abstract":"<div><p>In this paper, we review the growing development and applications of supercritical fluid chromatography-mass spectrometry (SFC-MS) for the analysis of small molecular analytes and biomarkers in drug discovery<span>. As an alternative chromatographic technique, SFC instrumentation and methodology have dramatically advanced over the last decade. Mass spectrometry (MS) provides the powerful detection capability as it couples with SFC. A growing number of SFC-MS/MS applications were reported over the last decade and the application areas of SFC-MS/MS is rapidly expanding. The first part of this review is devoted to the different aspects of SFC-MS development and recent technological advancements. In the second part of this review, we highlight the recent application areas in pharmaceutical research and development.</span></p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39820741","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Application of proteomics to understand maturation of drug metabolizing enzymes and transporters for the optimization of pediatric drug therapy 应用蛋白质组学了解药物代谢酶和转运体的成熟,以优化儿科药物治疗
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.06.008
Eva J. Streekstra , Frans G.M. Russel , Evita van de Steeg , Saskia N. de Wildt
{"title":"Application of proteomics to understand maturation of drug metabolizing enzymes and transporters for the optimization of pediatric drug therapy","authors":"Eva J. Streekstra ,&nbsp;Frans G.M. Russel ,&nbsp;Evita van de Steeg ,&nbsp;Saskia N. de Wildt","doi":"10.1016/j.ddtec.2021.06.008","DOIUrl":"10.1016/j.ddtec.2021.06.008","url":null,"abstract":"<div><p>Drug disposition in children is different compared to adults. Growth and developmental change the processes involved in drug disposition and efficacy, including membrane transporters and drug metabolizing enzymes, but for many of these proteins, the exact changes have not been fully elucidated to date. Quantitative proteomics offers a solution to analyze many DME and DT proteins at once and can be performed with very small tissue samples, overcoming many of the challenges previously limiting research in this pediatric field. Liquid chromatography tandem mass spectrometry (LC–MS/MS) based methods for quantification of (membrane) proteins has evolved as a golden standard for proteomic analysis. The last years, big steps have been made in maturation studies of hepatic and renal drug transporters and drug metabolizing enzymes using this method. Protein and organ specific maturation patterns have been identified for the human liver and kidney, which aids pharmacological modelling and predicting drug dosing in the pediatric population. Further research should focus on other organs, like intestine and brain, as well as on innovative methods in which proteomics can be used to further overcome the limited access to pediatric tissues, including liquid biopsies and organoids. In this review there is aimed to provide an overview of available human pediatric proteomics data, discuss its challenges and provide guidance for future research.</p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.ddtec.2021.06.008","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39586736","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 4
MALDI mass Spectrometry based proteomics for drug discovery & development 基于MALDI质谱的蛋白质组学用于药物发现和开发
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.09.002
Faizan Zubair
{"title":"MALDI mass Spectrometry based proteomics for drug discovery & development","authors":"Faizan Zubair","doi":"10.1016/j.ddtec.2021.09.002","DOIUrl":"10.1016/j.ddtec.2021.09.002","url":null,"abstract":"<div><p>Matrix-assisted laser desorption/ ionization (MALDI) is a soft ionization technique<span> for introducing wide range of analytes into a mass spectrometer (MS). MALDI MS is a powerful tool in drug discovery<span> research and development, providing a high-throughput molecular analysis technique in both preclinical and clinical systems. In particular, MALDI MS is invaluable in the study of peptides and proteins<span><span> that drive all biological functions. This technology is label-free, provides high specificity in molecular identification, and is high-throughput. MALDI MS has been used in biomarker discovery and quantitation in virtually all tissues, serum, plasma, CSF, and urine for diagnostics, patient stratification, and monitoring </span>drug efficacy. Other applications include characterization of biological drugs, spatial mapping of biomarkers and drugs in tissues, drug screening, and toxicological assessment.</span></span></span></p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39732461","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 2
Fragment-to-lead tailored in silico design 碎片到铅定制的硅设计
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.08.005
Moira Rachman , Serena Piticchio , Maciej Majewski , Xavier Barril
{"title":"Fragment-to-lead tailored in silico design","authors":"Moira Rachman ,&nbsp;Serena Piticchio ,&nbsp;Maciej Majewski ,&nbsp;Xavier Barril","doi":"10.1016/j.ddtec.2021.08.005","DOIUrl":"10.1016/j.ddtec.2021.08.005","url":null,"abstract":"<div><p><span>Fragment-based drug discovery (FBDD) emerged as a disruptive technology and became established during the last two decades. Its rationality and low entry costs make it appealing, and the numerous examples of approved drugs discovered through FBDD validate the approach. However, FBDD still faces numerous challenges. Perhaps the most important one is the transformation of the initial fragment hits into viable leads. Fragment-to-lead (F2L) optimization is resource-intensive and is therefore limited in the possibilities that can be actively pursued. </span><em>In silico</em> strategies play an important role in F2L, as they can perform a deeper exploration of chemical space, prioritize molecules with high probabilities of being active and generate non-obvious ideas. Here we provide a critical overview of current <em>in silico</em> strategies in F2L optimization and highlight their remarkable impact. While very effective, most solutions are target- or fragment- specific. We propose that fully integrated <em>in silico</em> strategies, capable of automatically and systematically exploring the fast-growing available chemical space can have a significant impact on accelerating the release of fragment originated drugs.</p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.ddtec.2021.08.005","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39732466","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Editorial to technologies in fragment-based drug discovery 编辑基于片段的药物发现技术
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.09.001
Iwan J.P. De Esch
{"title":"Editorial to technologies in fragment-based drug discovery","authors":"Iwan J.P. De Esch","doi":"10.1016/j.ddtec.2021.09.001","DOIUrl":"10.1016/j.ddtec.2021.09.001","url":null,"abstract":"","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39732467","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Structure-driven approaches and technologies for drug discovery 结构驱动的药物发现方法和技术
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.11.001
André Richters, Sven Hennig
{"title":"Structure-driven approaches and technologies for drug discovery","authors":"André Richters,&nbsp;Sven Hennig","doi":"10.1016/j.ddtec.2021.11.001","DOIUrl":"10.1016/j.ddtec.2021.11.001","url":null,"abstract":"","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39732462","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Proteomics advances towards developing SARS-CoV-2 therapeutics using in silico drug repurposing approaches 利用计算机药物再利用方法开发SARS-CoV-2治疗方法的蛋白质组学进展
Drug Discovery Today: Technologies Pub Date : 2021-12-01 DOI: 10.1016/j.ddtec.2021.06.004
Amrita Mukherjee , Ayushi Verma , Surbhi Bihani, Ananya Burli, Krishi Mantri, Sanjeeva Srivastava
{"title":"Proteomics advances towards developing SARS-CoV-2 therapeutics using in silico drug repurposing approaches","authors":"Amrita Mukherjee ,&nbsp;Ayushi Verma ,&nbsp;Surbhi Bihani,&nbsp;Ananya Burli,&nbsp;Krishi Mantri,&nbsp;Sanjeeva Srivastava","doi":"10.1016/j.ddtec.2021.06.004","DOIUrl":"10.1016/j.ddtec.2021.06.004","url":null,"abstract":"<div><p>Standing amidst the COVID-19 pandemic, we have faced major medical and economic crisis in recent times which remains to be an unresolved issue till date. Although the scientific community has made significant progress towards diagnosis and understanding the disease; however, effective therapeutics are still lacking. Several omics-based studies, especially proteomics and interactomics, have contributed significantly in terms of identifying biomarker panels that can potentially be used for the disease prognosis. This has also paved the way to identify the targets for drug repurposing as a therapeutic alternative. US Food and Drug Administration (FDA) has set in motion more than 500 drug development programs on an emergency basis, most of them are focusing on repurposed drugs. Remdesivir is one such success of a robust and quick drug repurposing approach. The advancements in omics-based technologies has allowed to explore altered host proteins, which were earlier restricted to only SARS-CoV-2 protein signatures. In this article, we have reviewed major contributions of proteomics and interactomics techniques towards identifying therapeutic targets for COVID-19. Furthermore, <em>in-silico</em> molecular docking approaches to streamline potential drug candidates are also discussed.</p></div>","PeriodicalId":36012,"journal":{"name":"Drug Discovery Today: Technologies","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2021-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.ddtec.2021.06.004","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10383449","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 4
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