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The collaborative computational project for NMR (CCPN): supporting biological NMR for the biosciences, medicine and industry.

The collaborative computational project for NMR (CCPN): supporting biological NMR for the biosciences, medicine and industry.
NMR 协作计算项目 (CCPN):支持生物科学、医学和工业领域的生物 NMR。
批准号:
MR/V000950/1
负责人:
Geerten Vuister
金额:
$213.97万
依托单位:
依托单位国家:
英国
项目类别:
Research Grant
财政年份:
2021
资助国家:
英国
项目状态:
未结题
起止时间:
2021 至 --

项目摘要

项目成果

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中文摘要
翻译
结构生物学是研究生物大分子的三维结构及其相互作用的学科。生物分子核磁共振波谱是结构生物学的三大核心技术之一,与X射线结晶学和低温电子显微镜具有很强的互补性。从核磁共振数据中提取信息传统上是复杂和非直观的。已经开发了许多智能和创新的工具,但不幸的是,这些工具经常被断开连接,没有很好地集成,有时很难使用。近二十年来,核磁共振合作计算项目(CCPN)一直在提供核磁共振数据和许多此类工具之间的连接接口方面发挥着核心作用。CCPN还积极促进知识和最佳做法的分享和交流。CCPN还在与研究资金和政策有关的所有事项上积极与英国和国际研究界接触。CCPN的目标是在未来5年内通过追求以下具体目标来继续其对科学界的巨大价值:1.开发与NMRCCPN相关的软件将改进、维护和扩展其程序,以提供新的功能、改进的处理和更快的速度。通过每两周更新一次和定期发布新版本,我们将确保软件在多个平台上正常运行。我们将继续致力于我们的软件与其他核磁共振计划的互操作性,并实施相关的报告和研究数据管理工具。支持生物科学的核磁共振我们将促进和实施最新的计算工具和开发,用于核磁共振数据分析、自动化、结构生成和验证。核磁共振支持医学核磁共振代谢组学是一个蓬勃发展的领域,它产生了从细胞到生物体(包括人类)的代谢途径的关键知识。我们设计了分析代谢组学来利用它的力量,我们将把重点放在为非专家用户提供的工具、简化的注释、分配、元数据和公共存储库中的存储。核磁共振支持工业我们将与工业和学术伙伴合作,测试和增强对工业有用的应用程序。例如,AnalysisScreen,小分子(核磁共振辅助)对接程序,以优化工作流程和效率,以及ChemBuild,以协助基于片段的药物发现。外联和培训通过其积极的外联方案,与包括国家和主要国际核磁共振设施在内的所有利益攸关方接触,将促进知识的持续交流,提供培训,并支持采用核磁共振的最佳做法。在该网站上可以找到越来越多的“如何操作”视频。CCPN将继续积极推动和发展社区数据标准(NEF),并将在有关研究资金和政策的讨论中发挥主导作用。CCPN将继续扮演英国与国际核磁共振社区之间的重要中介角色,通过促进(国际)国家核磁共振设施、其他CCP、国际WWPDB和NEF努力的联系。为了加强英国核磁共振社区,我们将继续成功地举办英国CCPN会议和教学计划,我们对CCPN用户的全面帮助和支持,参与国际努力,分享知识和交流最佳实践,并通过研讨会、论文和(视频)教程参与培训和教学。简而言之,CCPN将继续作为技术开发、协作和分享最佳做法的协调中心,在医学和工业等不同领域的生物核磁共振社区及其生物科学的传统基础上发挥重要作用。最终,拥有最好工具的研究人员有更多的时间做出新的发现。
英文摘要
Structural biology concerns the study of the three-dimensional structure of biological macromolecules and their interactions. Biomolecular Nuclear Magnetic Resonance (NMR) spectroscopy is one of three core techniques in structural biology, and highly complementary to the other two, i.e. X-ray crystallography and Cryo EM. Extracting information from NMR data has traditionally been complex and non-intuitive. Many smart and innovative tools have been developed, which unfortunately often have been disconnected and not well integrated and sometimes hard to use. For nearly two decades, the Collaborative Computational Project for NMR (CCPN) has been central in providing a connecting interface between the NMR data and many of these tools. CCPN also actively promotes the sharing and exchange of knowledge and best practices. CCPN also actively engages with the UK and international research communities in all matters relating to research funding and policies. The CCPN aims to continue its immense value to the scientific community over the next 5 years by pursuing the following specific objectives:1. Development of software relevant for NMRCCPN will improve, maintain and expand its programmes, to provide for new functionalities, improved handling, and better speeds. Through fortnightly updates and regular new releases, we will ensure the proper functioning of the software across multiple platforms. We will continuously work on interoperability of our software with other NMR programmes and implement relevant tools for reporting and research data management.2. NMR in support of Biological SciencesWe will facilitate and implement the latest computational tools and developments for NMR data analysis, automation, structure generation and validation.3. NMR in support of MedicineNMR metabolomics is a thriving field that generates crucial knowledge on metabolic pathways from cells to organisms, including humans. We have designed AnalysisMetabolomics to leverage its power and we will focus on tools for non-expert users, streamlined annotation, assignment, metadata and deposition in public repositories.4. NMR in support of IndustryIn collaboration with industrial and academic partners, we will test and enhance applications that are useful to industry. Examples are AnalysisScreen, small-molecule (NMR-assisted) docking procedures to optimise workflows and efficiency and ChemBuild to assist with fragment-based drug discovery.5. Outreach and trainingThrough its active outreach programme, engaging with all stakeholders including national and major international NMR facilities, CCPN will promote the continuous exchange of knowledge, provide training and support the adoption of best practices in NMR. There is a growing body of "how to" videos available on the website. CCPN will actively continue to promote and develop community data standards (NEF), and will take a leading role in discussions on research funding and policies.CCPN will continue its crucial role as intermediary between the UK and international NMR community, by fostering contacts with (inter-)national NMR facilities, other CCPs, the international wwPDB and NEF efforts.To strengthen the UK NMR community, we will continue the successful series of UK CCPN conferences and teaching programs, our comprehensive help and support for CCPN users, participate in international efforts in knowledge sharing and exchange of best practices, and engage in training and teaching through workshops, papers and (video) tutorials.In short, CCPN will continue to make a crucial difference to the biological NMR community in different fields such as Medicine and Industry as well as its traditional base of the biological sciences by acting as a focal point for technology development, collaboration and sharing best practices. Ultimately, researchers who are empowered with the best tools have more time to make new discoveries.
期刊论文(4)
专著(0)
科研奖励(0)
会议论文
On The Importance of Open-Source Databases for NMRBased Metabolomics
论开源数据库对于基于 NMR 的代谢组学的重要性
DOI: 10.34297/ajbsr.2023.18.002455
发表时间: 2023
期刊: American Journal of Biomedical Science & Research
影响因子: --
作者: [Vuister G]
通讯作者: Vuister G
DOI: 10.3389/fmolb.2022.834453
发表时间: 2022
期刊: Frontiers in molecular biosciences
影响因子: 5
作者: [Mureddu LG, Vuister GW]
通讯作者: Vuister GW
Biochemistry and pathophysiology of the Transient Potential Receptor Vanilloid 6 (TRPV6) calcium channel.
瞬时电位受体 Vanilloid 6 (TRPV6) 钙通道的生物化学和病理生理学。
DOI: 10.1016/bs.acc.2022.11.002
发表时间: 2023
期刊: Advances in clinical chemistry
影响因子: --
作者: [Walker V]
通讯作者: Walker V
The dynamic ensemble: exploring accessible conformational space
  • 批准号:
    BB/P002692/1
  • 项目类别:
    Research Grant
  • 资助金额:
    $37.32万
  • 财政年份:
    2018
  • 负责人:
    Geerten Vuister
  • 依托单位:
A Coordinated Infrastructure for NMR in the Physical and Life Sciences: Upgrade of the Leicester 800MHz NMR for Structural Biology and Drug Discovery
  • 批准号:
    EP/R029997/1
  • 项目类别:
    Research Grant
  • 资助金额:
    $118.27万
  • 财政年份:
    2018
  • 负责人:
    Geerten Vuister
  • 依托单位:
The Collaborative Computational Project for NMR (CCPN): data analysis, integration and partnerships for NMR in the biosciences
  • 批准号:
    MR/P00038X/1
  • 项目类别:
    Research Grant
  • 资助金额:
    $117.23万
  • 财政年份:
    2016
  • 负责人:
    Geerten Vuister
  • 依托单位:
The Collaborative Computational Project for NMR (CCPN): Supporting biomolecular NMR and community driven NMR software development.
  • 批准号:
    MR/L000555/1
  • 项目类别:
    Research Grant
  • 资助金额:
    $96.22万
  • 财政年份:
    2013
  • 负责人:
    Geerten Vuister
  • 依托单位:
国内基金
海外基金
物体运动对流场扰动的数学模型研究
  • 批准号:
    51072241
  • 项目类别:
    专项基金项目
  • 资助金额:
    10.0万元
  • 批准年份:
    2010
  • 负责人:
    李廷秋
  • 依托单位:
Computational Methods for Analyzing Toponome Data