检索结果-内蒙古大学图书馆

Biosynthesis, therapeutic characteristics, origin and strategies to improve the yield of vasicine in plants

Vegetos 2025年 1-15页

作者： Padmanabhan, Deepthi Manimekalai, Ramaswamy Senthil-Nathan, Sengottayan Suganthi, Muthusamy Palanisamy, Senthilkumar Department of Genetic Engineering School of Bioengineering SRM Institute of Science and Technology Kattankulathur 603203 India Molecular Biology and Bioinformatics Sugarcane Breeding Institute Tamil Nadu Coimbatore 641 007 India Division of Biopesticides and Environmental Toxicology Sri Paramakalyani Centre for Excellence in Environmental Sciences Manonmaniam Sundaranar University Tamil Nadu Alwarkurichi India Department of Biotechnology Vels Institute of Science Technology and Advanced Studies (VISTAS) Pallavaram Chennai 600 117 India

From the year 2016 to 2019, a total of 196 botanical drugs were registered for clinical trials, out of which 81 drugs were in phase II or III laid an environment for further trials and marketing of the drugs. Vasicine, a pyrroquinazoline alkaloidal compound found in some medicinal plants such as Justicia adhatoda and Sida cordifolia to name a few. Due to its broad range of health-promoting properties, the compound has piqued the attention of nutritionists and medicinal chemists. The compound’s recent pharmacological applications include antiviral activity against SARS-Co-V2, antimicrobial activity against E. aerogenes, S. epidermidis and P. aeruginosa, cytotoxic effect against lung adenocarcinoma and free radical scavenging activity, implying a potential role as an antioxidant. Vasicine was also discovered to have a possible anti-inflammatory property in carrageenan-induced inflammation, as well as neuroprotective efficacy in in vitro experiments on neuroblastoma cells by blocking cholinesterases in Alzheimer’s disease and improving memory and cognition. The integration of a multi-omics approach to elucidate the biosynthetic pathway and key regulatory enzymes laid the basis for metabolically engineering the entire pathway in microbial systems, as well as polyculture of microbes for robust biosynthesis strategies to overcome the limitations of traditional monoculture techniques for bioactive production. Genome editing with CRISPR Cas technologies plays a major role in the transformation of vasicine metabolite engineering to alter the process of biosynthesis and increase large-scale production in plants. © The Author(s) under exclusive licence to Society for Plant Research 2025.

关键词： Medicinal plants Natural products Novel drugs Secondary metabolites

来源：评论

学校读者我要写书评

暂无评论

A genome-wide survey of alternative translational initiation events in Homo sapiens

引用

Science China(Life Sciences) 2007年第3期50卷 423-428页

作者： ZHANG Jing1, CAI Jun2 & LI YanDa1 1 bioinformatics division, TNLIST and Department of Automation, Tsinghua University, Beijing 100084, China 2 Department of bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL, 61801,USA 1. Bioinformatics Division TNLIST and Department of Automation Tsinghua University Beijing 100084 China 2. Department of Bioengineering University of Illinois at Urbana-Champaign Urbana IL 61801 USA

Alternative translational initiation is an important mechanism to increase the diversity of gene products. Although some of alternative translational initiation events have been reported, such information remains anecdotal and does not allow for any generalizations. The number of the known alternative translational initiation genes is so few that we know little about its mechanism. There is a great demand to discover more alternative translational initiation genes. However, it is arduously time-consuming to discover novel alternative translational initiation genes by the experimental method. Therefore we systematically analyzed protein sequences available in public database and predicted 1237 protein clusters as potential alternative translational initiation events. We concluded that about 8%—10% of human genes have alternative translational initiation sites. The results significantly increased the number of alternative translation initiation events and indicated that alternative translation initiation is an important and general regulation mechanism in the cellular process.

关键词： ATI A genome-wide survey of alternative translational initiation events in Homo sapiens

来源：评论

学校读者我要写书评

暂无评论

Discovery of powerful multifaceted antioxidant for combating oxidative stress associated with neurodegenerative disorders

引用

Acta Pharmaceutica Sinica B 2025年

作者： khan, Juhee Gharai, Prabir kumar Garg, Shubham Gupta, Sanju Arshi, Mohammad Umar Mallesh, Rathnam Ghosh, Surajit Organic and Medicinal Chemistry and Structural Biology and Bioinformatics Division CSIR-Indian Institute of Chemical Biology Kolkata 700032 India Department of Bioscience and Bioengineering Indian Institute of Technology Rajasthan 342037 India National Institute of Pharmaceutical Education and Research Kolkata 700054 India

Amidst the tangled web of neurons, antioxidants stand as silent sentinels, shielding the delicate threads from the raging storm of oxidative stress in the realm of neurological affliction. Herein, we showcased an innovative design strategy to develop a novel powerful antioxidant small molecule (AOX), designed with the synergistic integration of EGCG (epigallocatechin gallate), gallic acid, and coupled with the metal-chelating capabilities of 8-hydroxy quinoline functional moieties that exhibit multifunctional activity in combating oxidative stress via activating the anti-oxidative, anti-apoptotic and anti-inflammatory activity, showcasing the potential for a transformative impact in neuroprotection from oxidative insults. Our work addresses oxidative stress in neuronal systems by providing a thorough examination of oxidative stress caused by hydrogen peroxide in PC12 cell line-derived neurons by shedding light on the antioxidative mechanisms orchestrated by our novel small molecule. Particularly our designed molecule (AOX) provides neuroprotection by mitigating mitochondrial impairment and activating the Nrf2/ARE (nuclear factor erythroid 2-related factor 2/antioxidant response element) pathway and it also demonstrates remarkable resilience against neuroinflammation, as evidenced by minimal alterations in neuroinflammatory markers such as GFAP, IBA1, and S100β in a transient bilateral common carotid artery occlusion (tBCCAO) ischemic stroke model. © 2025 The Authors

关键词： Antioxidant Hydrogen peroxide Ischemic stroke Neuroprotection Nrf2/ARE pathway Oxidative stress Polyphenol tBCCAO

来源：评论

学校读者我要写书评

暂无评论

Chondrogenic differentiation of mesenchymal stem cells in a leakproof collagen sponge

引用

Materials Science and Engineering C 2008年第1期28卷 195-201页

作者： Chen, Guoping Akahane, Daisuke Kawazoe, Naoki Yamamoto, Katsuyuki Tateishi, Tetsuya Biomaterials Center National Institute for Materials Science 1-1 Namiki Tsukuba Ibaraki 305-0044 Japan Division of Bioengineering and Bioinformatics Graduate School of Information Science and Technology Hokkaido University

A three-dimensional culture of mesenchymal stem cells (MSCs) in a porous scaffold has been developed as a promising strategy for cartilage tissue engineering. The chondrogenic differentiation of MSCs derived from human bone marrow was studied by culturing the cells in a novel scaffold constructed of leakproof collagen sponge. All the surfaces of the collagen sponge except the top were wrapped with a membrane that has pores smaller than the cells to protect against cell leakage during cell seeding. The cells adhered to the collagen, distributed evenly, and proliferated to fill the spaces in the sponge. Cell seeding efficiency was greater than 95%. The MSCs cultured in the collagen sponge in the presence of TGF-β3 and BMP6 expressed a high level of genes encoding type II and type X collagen, sox9, and aggrecan. Histological examination by HE staining indicated that the differentiated cells showed a round morphology. The extracellular matrices were positively stained by safranin O and toluidine blue. Immunostaining with anti-type II collagen and anti-cartilage proteoglycan showed that type II collagen and cartilage proteoglycan were detected around the cells. These results suggest the chondrogenic differentiation of MSCs when cultured in the collagen sponge in the presence of TGF-β3 and BMP6. © 2006 Elsevier B.V. All rights reserved.

关键词： Cell culture

来源：评论

学校读者我要写书评

暂无评论

Sustainable and secretory production of saffron pigments in Synechocystis sp. PCC 6803 and E. coli

引用

Plant Communications 2025年

作者： Shanshan Song Fatimah Aljedaani Kit Xi Liew Jianing Mi Mohamed Salem Salim Bougouffa Sebastian Overmans Kyle J. Lauersen Xiongjie Zheng Salim Al-Babili The BioActives Lab Biological and Environmental Science and Engineering Division (BESE) King Abdullah University of Science and Technology (KAUST) Thuwal 23955-6900 Saudi Arabia The Bioinformatics Platform King Abdullah University of Science and Technology (KAUST) Thuwal 23955-6900 Saudi Arabia Bioengineering Program Biological and Environmental Science and Engineering Division (BESE) King Abdullah University of Science and Technology (KAUST) Thuwal 23955-6900 Saudi Arabia

来源：评论

学校读者我要写书评

暂无评论

Zero-shot Medical Event Prediction Using a Generative Pre-trained Transformer on Electronic Health Records

arXiv

引用

arXiv 2025年

作者： Redekop, Ekaterina Wang, Zichen Kulkarni, Rushikesh Pleasure, Mara Chin, Aaron Hassanzadeh, HamidReza Hill, Brian L. Emami, Melika Speier, William Arnold, Corey W. Biomedical AI Research Lab University of California Los Angeles Los Angeles United States Department of Radiology University of California Los Angeles Los Angeles United States Department of Bioengineering University of California Los Angeles Los Angeles United States Bioinformatics University of California Los Angeles Los Angeles United States Department of Pediatrics Division of Immunology Allergy and Rheumatology University of California Los Angeles Los Angeles United States Health Department of Information Services and Solutions University of California Los Angeles University of California Los Angeles Los Angeles United States Optum AI United States Department of Computational Medicine University of California Los Angeles Los AngelesCA United States

Objectives: Longitudinal data in electronic health records (EHRs) represent an individual‘s clinical history through a sequence of codified concepts, including diagnoses, procedures, medications, and laboratory tests. Foundational models, such as generative pretrained transformers (GPT), can leverage this data to predict future events. While fine-tuning of these models enhances task-specific performance, it is costly, complex, and unsustainable for every target. We show that a foundation model trained on EHRs can perform predictive tasks in a zero-shot manner, eliminating the need for fine-tuning. Materials and methods: This study presents the first comprehensive analysis of zero-shot forecasting with GPT-based foundational models in EHRs, introducing a novel pipeline that formulates medical concept prediction as a generative modeling task. Unlike supervised approaches requiring extensive labeled data, our method enables the model to forecast a next medical event purely from a pretraining knowledge. We evaluate performance across multiple time horizons and clinical categories, demonstrating model‘s ability to capture latent temporal dependencies and complex patient trajectories without task supervision. Results: Model performance for predicting the next medical concept was evaluated using precision and recall metrics, achieving an average top1 precision of 0.614 and recall of 0.524. For 12 major diagnostic conditions, the model demonstrated strong zero-shot performance, achieving high true positive rates while maintaining low false positives. Discussion and conclusion: We demonstrate the power of a foundational EHR GPT model in capturing diverse phenotypes and enabling robust, zero-shot forecasting of clinical outcomes. This capability enhances the versatility of predictive healthcare models and reduces the need for task-specific training, enabling more scalable applications in clinical settings. © 2025, CC BY.

关键词： Electronic health record

来源：评论

学校读者我要写书评

暂无评论

Exploring The Interplay Between Scoring Functions and Physico-chemical Properties in Antibody-antigen Docking

引用

IPSJ Transactions on bioinformatics 2024年 17卷 10-17页

作者： Ratnayake, Sangeetha Martinelli, Axel Endo, Toshinori Osada, Naoki Division of Bioinformatics and Bioengineering Graduate School of Information Science and Technology Hokkaido University Hokkaido Sapporo060–0814 Japan BigOmics Analytics Via Serafino Balestra 12 Lugano6900 Switzerland Faculty of Information Science and Technology Hokkaido University Hokkaido Sapporo060–0814 Japan

The advent of antibody therapy has brought about a change in the treatment of diseases. The efficacy of antibody modeling relies on the intricate atomic interactions between antibodies and antigens. Traditional methods for determining antibody structures, such as X-ray crystallography, are costly and time-consuming. Computational docking offers a faster and more cost-effective approach to obtaining complex antibody and antigen complexes even in challenging scenarios. Rosetta, a widely employed software for protein structure modeling, incorporates a scoring function specifically tailored for modeling antibody-antigen interactions. The unique characteristics of the antibody-antigen interface can result in inaccurate predictions. Therefore, it is essential to understand the existing scoring function and the behavior of the antibody-antigen interface. In this study, we evaluated specific parameters within Rosetta-derived scoring functions, with a particular focus on the energy landscape of the structures they generated. We found that performance in antibody-antigen docking simulations could be enhanced by omitting parameters related to solvation. Also, we delved into the physico-chemical properties of antibody-antigen interfaces, paying special attention to the complementarity-determining regions and epitopes. Our exploration helped identify certain parameters that significantly influence docking simulation performance. These insights pave the way for the creation of more accurate scoring functions tailored for specific antibody-antigen interactions. © 2024 Information Processing Society of Japan.

关键词： Antibodies

来源：评论

学校读者我要写书评

暂无评论

Advancing Antibody-antigen Interface Analysis in Docking Scoring Functions for Precision Docking Analysis

引用

IPSJ Transactions on bioinformatics 2024年 17卷 40-47页

Molecular docking simulations utilizing scoring functions are pivotal for assessing the stability of complex formations. The unique biochemical characteristics of antibody-antigen interfaces, however, present challenges in applying general parameter sets of scoring functions to these molecules, necessitating the customization of the scoring function to enhance prediction accuracy for structural configurations and binding affinities. In response to this, we have developed models within the Rosetta software framework, widely recognized for its utility in predicting antigen-antibody docking, to optimize the parameters of its scoring function. Through a quantitative evaluation of the shape of decoy distribution generated by Rosetta, we have been able to refine the parameters for each antibody-antigen complex, yielding a notable improvement in the prediction accuracy of the software for a given dataset. Furthermore, we have identified a distinct parameter set that is effective for the majority of complexes in our dataset, though not universally applicable. This study introduces a novel approach to customizing scoring functions, potentially contributing to advancements in drug discovery and deepening our understanding of the complexities inherent in antibody-antigen interactions at a molecular level. © 2024 Information Processing Society of Japan.

关键词： Antibodies

来源：评论

学校读者我要写书评

暂无评论

Bioinformatic-driven search for metabolic biomarkers in disease

引用

Journal of Clinical bioinformatics 2011年第1期1卷 1-10页

作者： Baumgartner, Christian Osl, Melanie Netzer, Michael Baumgartner, Daniela Research Group for Clinical Bioinformatics Institute of Electrical Electronic and Bioengineering University for Health Sciences Medical Informatics and Technology (UMIT) Hall in Tirol Austria Clinical Division of Pediatric Cardiology Department of Pediatrics Innsbruck Medical University Austria

The search and validation of novel disease biomarkers requires the complementary power of professional study planning and execution, modern profiling technologies and related bioinformatics tools for data analysis and interpretation. Biomarkers have considerable impact on the care of patients and are urgently needed for advancing diagnostics, prognostics and treatment of disease. This survey article highlights emerging bioinformatics methods for biomarker discovery in clinical metabolomics, focusing on the problem of data preprocessing and consolidation, the data-driven search, verification, prioritization and biological interpretation of putative metabolic candidate biomarkers in disease. In particular, data mining tools suitable for the application to omic data gathered from most frequently-used type of experimental designs, such as case-control or longitudinal biomarker cohort studies, are reviewed and case examples of selected discovery steps are delineated in more detail. This review demonstrates that clinical bioinformatics has evolved into an essential element of biomarker discovery, translating new innovations and successes in profiling technologies and bioinformatics to clinical application. © 2011 Baumgartner et al;licensee BioMed Central Ltd.

关键词：

来源：评论

学校读者我要写书评

暂无评论

Augmented reality visualization of biomechanical wall stresses on abdominal aortic aneurysms using artificial intelligence

Science Talks

引用

Science Talks 2025年 13卷 100432页

作者： Chung, Timothy K. Gueldner, Pete H. Kottakota, Aakash K. Hangey, Christian N. Lee, Jason Y. Liang, Nathan L. Vorp, David A. Department of Bioengineering University of Pittsburgh Pittsburgh PA United States Computational Biology and Bioinformatics University of Pittsburgh PA United States Department of Mechanical Engineering and Materials Science University of Pittsburgh Pittsburgh PA United States McGowan Institute for Regenerative Medicine University of Pittsburgh Pittsburgh PA United States Department of Surgery University of Pittsburgh Pittsburgh PA United States Division of Vascular Surgery University of Pittsburgh Medical Center Pittsburgh PA United States Department of Chemical and Petroleum Engineering University of Pittsburgh Pittsburgh PA United States Department of Cardiothoracic Surgery University of Pittsburgh Pittsburgh PA United States Clinical and Translational Sciences Institute University of Pittsburgh Pittsburgh PA United States Magee Women's Research institute University of Pittsburgh Pittsburgh PA United States

The number of medical images taken has continued to increase year over year for an aging population in the United States. It has been shown that patients understand their diagnoses better when shown a 2D or 3D image of their respective diseases. However, clinicians do not regularly show patients their images as it requires additional time and processing. In this experiment, we demonstrate the use of augmented reality to visualize abdominal aortic aneurysms using a previously developed artificial intelligence engine. Our group further expanded the number of cases used for training the stress prediction model to a total of 274 patients (206 used for training or ∼ 5.4 million nodes, and 68 for testing or ∼1.8 million nodes). Medical images undergo automated segmentation, and wall stresses are predicted on the 3D surface of aneurysms to view a heat map. The pipeline includes introducing elements into the Microsoft HoloLens 2 ecosystem to view models and additional analytics, enabling clinicians and patients to view the biomechanical status without the need for a computational or imaging expert. The proposed clinical workflow would allow a local server to process medical imaging data, generate point clouds, predict wall stresses on individual points, and create a 3D model with a colormap to view in augmented reality. The study revealed that neural networks and ensemble boosted tress models predicted the wall stresses more accurately (when compared to ground truth finite element analysis results). The approach is not limited to the HoloLens 2 ecosystem but can be used with other emerging augmented or virtual reality hardware systems. Summary: Patient understanding of their diagnosis improves when they are shown medical images by clinicians. An artificial intelligence-based clinical workflow has been developed to visualize the biomechanical status using augmented reality, providing additional information to clinicians and patients. Our research improves the tools that are

关键词： Abdominal aortic aneurysms Artificial intelligence Augmented reality Biomechanics Metaverse Stress analysis Visualization

来源：评论

学校读者我要写书评

暂无评论

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案：

请选择收藏分类：

通借通还

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：