National Biomedical Information Services

国家生物医学信息服务

基本信息

批准号：
10927115
负责人：
Michael Huerta
金额：
$ 35884.77万
依托单位：
NATIONAL LIBRARY OF MEDICINE
依托单位国家：
美国
项目类别：
财政年份：
资助国家：
美国
起止时间：
至
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10927115
关键词：
2019-nCoV Acceleration Adoption African American Alaska Native American Indians Antimicrobial Resistance Artificial Intelligence Asian Americans Authorization documentation Automated Indexing Awareness Bioinformatics Biological Biomedical Engineering Biomedical Research Biotechnology Black American Books COVID-19 COVID-19 pandemic Chemicals ClinVar Clinical Clinical Data Clinical Research Clinical Trials Code Collaborations Collection Common Data Element Communities Comparative Genomic Analysis Computational Science Coronavirus DNA Sequence Data Data Analyses Data Science Data Set Data Storage and Retrieval Databases Development Discipline Diverse Workforce Drug Labeling Early Intervention Ecosystem Electronic Health Record Emergency response Ensure Epidemiology Escherichia coli Ethnic Origin Family Federal Government Feedback Frequencies Funding Genbank Genetic Genome Genomics Goals Health Health Professional Health Services Health Services Research Health Technology Healthcare Hispanic History of Medicine Human Human Genetics Human Genome Individual Information Dissemination Information Services Information Systems Infrastructure Interlibrary Loans International Intramural Research Program Journals Knowledge Latino Leadership Libraries Linguistics Listeria Literature Local Government Logical Observation Identifiers Names and Codes MEDLINE Machine Learning Maintenance Manuscripts MeSH Thesaurus Medical Device Medical Informatics Medical Libraries MedlinePlus Methods Minority Minority-Serving Institution Modernization Molecular Biology Monitor Mutation Names National Heart, Lung, and Blood Institute Native-Born Operations Research Organism Pacific Islander Pathogen detection Patients Persons Pharmaceutical Preparations Phenotype Play Policies Population Population Group Positioning Attribute Preparation Prevention Measures Printing Process Proteins Provider PubMed Public Health Readability Recording of previous events Records Reduce health disparities Reporting Research Research Personnel Research Support Resources Role Route SARS-CoV-2 genome SARS-CoV-2 variant Salmonella Sampling Science Sequence Read Archive Services Source Standardization State Government Strategic Planning System Systematized Nomenclature of Medicine Techniques Technology Terminology Text Therapeutic Time Training Transcript Translating Tribes Trust Underrepresented Populations United States National Institutes of Health United States National Library of Medicine Update Vaccines Validation Variant Viral Visualization analytical tool archive data authority automated analysis biomedical informatics biomedical information system cloud based cloud platform community engagement comparative comparative genomics computerized data processing coronavirus disease data reduction data standards data submission digital digital medicine electronic health record system exhibitions experience foodborne illness foodborne pathogen genome annotation genome resource genome sequencing genomic data graphical user interface health data health disparity health management improved indexing innovation interoperability journal article knowledgebase lectures online resource open data outreach pathogen petabyte preservation programs public health emergency repository research and development research study scientific computing statistics tool virus resource web site

项目摘要

In FY 2023, NLM's national biomedical information services expanded and enhanced access to data and information to accelerate biomedical research and public health. Provided access to biomedical literature Indexed 1+ million MEDLINE citations with medical subject headings (MeSH). Added 1.6 million citations to PubMed, growing it to 36+ million citations to biomedical literature. Expanded LitCovid to provide enhanced access to 360,000+ SARS-CoV-2 article citations in PubMed. Added nearly 1 million articles to PubMed Central (PMC) to provide free public access to 9+ million full-text journal articles, 5+ million of which are downloadable in machine-readable forms to support automated analysis through bulk download or at scale in the cloud using machine learning and artificial intelligence. Provided immediate access to 350,000+ coronavirus articles in machine-readable formats through the PMC Public Health Emergency COVID-19 Collection. Expanded the NIH Preprint Pilot to provide access to 10,000+ preprints reporting on NIH-funded research. Digitized 372,000 pages from print books and journals, making them accessible worldwide through NLMs Digital Collections and PMC. Expanded and maintained other digital collections by adding 5,100+ web resources to a collection that now provides access to 20,000+ resources documenting the COVID-19 pandemic, including content from federal, state, and local governments, aid organizations, and NGOs websites on topics ranging from prevention measures and vaccines. Filled 56,000 interlibrary loan (ILL) requests. Enabled ILL activities between approximately 1,780 medical libraries to fulfill an estimated 545,000 requests through the NLM DOCLINE ILL request and routing system. Provided trusted information for biomedical research, public health, and health care management Registered 37,000 new clinical research studies and added 4,000+ new results summaries to ClinicalTrials.gov, which provides access to 466,000+ studies and 60,000+ results summaries, including 9,000+ COVID-19-related studies. Launched a modernized ClinicalTrials.gov website after a multiyear effort to improve the user experience. Added 968 million genetic sequences, including 1.5 million SARS-CoV-2 genome sequence records, to the GenBank database of all publicly available DNA sequences. Added 41.7 million records to RefSeq, a database of reference sequences including genomic, transcript, and protein data, which generates comprehensive human genome annotation results. Added 720,000+ annotated human genetic sequence variants to ClinVar, which reports on relationships among human genome variations and human phenotypes. Provided 25+ million SRA data records (87 petabytes of genetic sequence data) on two commercial cloud providers in three formats, including a post-processed version available through the AWS Open Data Program and a second post-processed version with a greatly reduced data storage footprint, available from commercial AWS and Google cloud platforms to enable the use of machine learning and artificial intelligence. These data included the COVID-19 Genome Sequence Dataset, providing free cloud-based access to SARS-CoV-2 SRA data and controlled access to human genome sequence data derived from research studies. Supported the SARS-CoV-2 Sequencing for Public Health Emergency Response, Epidemiology, and Surveillance consortium to provide publicly accessible SARS-CoV-2 sequence data in GenBank and SRA. Improved SARS-CoV-2 data submission and validation processes to SARS-CoV-2 virus resources and updated graphic interfaces for viral lineage data retrieval. Supported processes and infrastructure to monitor and evaluate emerging SARS-CoV-2 variants as part of NIH ACTIV TRACE, and standardized, gathered, and shared variant sequencing data. Supported data processing and analysis methods to track the frequency of SARS-CoV-2 sequence mutations and variants using different genome sequencing technologies and predict their impact on vaccine and biologic early interventions. Provided results of this standardized analysis to support the findability of individual samples and large-scale analysis across the entire dataset. Continued to develop the NIH Comparative Genomics Resource to facilitate comparative genomics analyses for eukaryotic organisms through an ecosystem of NLM repositories and community-created knowledgebases offering integrated cloud-ready data, tools, and interfaces compatible with community-provided organism resources. Conducted outreach to support a strategy of stakeholder feedback and community engagement. Submitted manuscripts and released tools to improve the quality of genomic data submitted to GenBank for comparative analyses, to assist users to find and download genomic data, and to visualize and identify sequences. Processed genome sequence data for 416,000+ samples via the Pathogen Detection Pipeline to identify sources of human illnesses such as Salmonella, E. coli, and Listeria. Provided real-time foodborne pathogen surveillance used by the U.S. FDA, resulting in 1,000+ actions to protect consumers from foodborne illness. Provided access to antimicrobial resistance information for nearly 1.2 million pathogens via AMRFinderPlus. Expanded DailyMed drug labeling information for 145,000+ drugs and added information for 460,000+ medical devices in the AccessGUDID database of more than 4 million medical devices. Provided trusted health information to an estimated 500 million visitors through MedlinePlus and nearly 200 million patients via electronic health record (EHR) systems via MedlinePlus Connect. Transitioned MedlinePlus Connect to the cloud for faster, more reliable access to critical health information. Provided information to evaluate online health information. Supported the development and use of health data standards Coordinated clinical data standards for HHS and provided resources to facilitate interoperability of clinical health data and confirmation of federal EHR interoperability requirements. Updated health data standards resources by expanding the SNOMED International Edition and the U.S. Extension with more than 7,000 and 300 concepts respectively. Added 600+ codes to LOINC and expanded the RxNorm drug terminology by 200+ concepts. Added 1,700+ federally recognized American Indian and Alaskan Native tribal names and ethnic and ethnolinguistic minority terms designated as "Population Groups" to MeSH. Enhanced the Value Set Authority Center with new features to support maintenance, comparison, tracking of changes, and usage statistics of value sets. Enhanced the NIH Common Data Element (CDE) Repository to encourage adoption of CDEs in NIH-funded biomedical research. Added 12 CDEs from the NHLBI Collaborating Network of Networks for Evaluating COVID-19 and Therapeutic Strategies program to the NIH-Endorsed CDEs and curated 4 COVID and 5 non-COVID-related CDE submissions in preparation for NIH endorsement, including submission of 30 CDEs from the NIH Science collaborative for Health disparities and Artificial intelligence bias Reduction. Enhanced public engagement and creation of a diverse workforce Supported minority-serving institution libraries knowledge and use of the All of Us Researcher Workbench. Provided training on user conduct and access to All of Us data and data engagement techniques via the All of Us data training and engagement for academic libraries program. Improved public awareness of NLM resources by hosting 7 Michael E. DeBakey Fellows in the History of Medicine to support research using NLM historical collections, an Ada Lovelace Computational Health Lecture highlighting computational innovation efforts to biomedical research, 9 History Talks promoting awareness and use of NLMs historical collections for research, and 38 online exhibitions.

2023 财年，NLM 的国家生物医学信息服务扩大并增强了数据和信息的获取，以加速生物医学研究和公共卫生。提供生物医学文献的访问使用医学主题标题 (MeSH) 对超过 100 万条 MEDLINE 引文建立了索引。 PubMed 引用次数增加了 160 万次，生物医学文献引用次数增至 36+00 万次。扩展了 LitCovid，以增强对 PubMed 中 360,000 多篇 SARS-CoV-2 文章引用的访问。向 PubMed Central (PMC) 添加了近 100 万篇文章，向公众免费提供 9 多万篇全文期刊文章，其中 5 多万篇可以机器可读的形式下载，以支持通过批量下载或大规模进行自动分析使用机器学习和人工智能的云。通过 PMC 公共卫生紧急情况 COVID-19 合集，可以立即访问 350,000 多篇机器可读格式的冠状病毒文章。扩大了 NIH 预印本试点范围，提供 10,000 多份有关 NIH 资助研究的预印本报告。将印刷书籍和期刊中的 372,000 页数字化，以便通过 NLM 数字馆藏和 PMC 在全世界范围内访问。通过添加 5,100 多个网络资源来扩展和维护其他数字馆藏，该馆藏现在提供对记录 COVID-19 大流行的 20,000 多个资源的访问，包括来自联邦、州和地方政府、援助组织和非政府组织网站的内容，主题包括来自预防措施和疫苗。满足了 56,000 份馆际互借 (ILL) 请求。通过 NLM DOCLINE ILL 请求和路由系统，在大约 1,780 个医学图书馆之间启用了 ILL 活动，以满足估计 545,000 个请求。为生物医学研究、公共卫生和医疗保健管理提供可信信息在 ClinicalTrials.gov 上注册了 37,000 多项新的临床研究，并添加了 4,000 多项新结果摘要，可访问 466,000 多项研究和 60,000 多项结果摘要，其中包括 9,000 多项与 COVID-19 相关的研究。经过多年努力改善用户体验，推出了现代化的 ClinicalTrials.gov 网站。将 9.68 亿条基因序列添加到所有公开 DNA 序列的 GenBank 数据库中，其中包括 150 万条 SARS-CoV-2 基因组序列记录。 RefSeq 是一个包含基因组、转录本和蛋白质数据的参考序列数据库，添加了 4170 万条记录，可生成全面的人类基因组注释结果。向 ClinVar 添加了 720,000 多个带注释的人类基因序列变异，报告了人类基因组变异和人类表型之间的关系。在两家商业云提供商上以三种格式提供了超过 2500 万条 SRA 数据记录（87 PB 的基因序列数据），包括通过 AWS 开放数据计划提供的后处理版本和大幅减少数据存储的第二个后处理版本足迹，可从商业AWS和谷歌云平台获得，以支持机器学习和人工智能的使用。这些数据包括 COVID-19 基因组序列数据集，提供对 SARS-CoV-2 SRA 数据的免费基于云的访问，以及对源自研究的人类基因组序列数据的受控访问。支持公共卫生应急响应、流行病学和监测联盟的 SARS-CoV-2 测序，在 GenBank 和 SRA 中提供可公开访问的 SARS-CoV-2 序列数据。改进了 SARS-CoV-2 数据提交和 SARS-CoV-2 病毒资源验证流程，并更新了病毒谱系数据检索的图形界面。作为 NIH ACTIV TRACE 的一部分，支持监测和评估新出现的 SARS-CoV-2 变体的流程和基础设施，并标准化、收集和共享变体测序数据。支持数据处理和分析方法，使用不同的基因组测序技术追踪 SARS-CoV-2 序列突变和变异的频率，并预测其对疫苗和生物早期干预措施的影响。提供了此标准化分析的结果，以支持单个样本的可查找性以及整个数据集的大规模分析。继续开发 NIH 比较基因组学资源，通过 NLM 存储库和社区创建的知识库组成的生态系统促进真核生物的比较基因组学分析，提供与社区提供的生物资源兼容的集成云就绪数据、工具和接口。开展外展活动以支持利益相关者反馈和社区参与的战略。提交手稿并发布工具，以提高提交给 GenBank 进行比较分析的基因组数据的质量，帮助用户查找和下载基因组数据，以及可视化和识别序列。通过病原体检测管道处理 416,000 多个样本的基因组序列数据，以确定沙门氏菌、大肠杆菌和李斯特菌等人类疾病的来源。提供美国 FDA 使用的实时食源性病原体监测，采取了 1,000 多项行动来保护消费者免受食源性疾病的侵害。通过 AMRFinderPlus 提供近 120 万种病原体的抗菌药物耐药性信息。扩展了 DailyMed 145,000 多种药品的药品标签信息，并在包含超过 400 万种医疗器械的 AccessGUDID 数据库中添加了 460,000 多种医疗器械的信息。通过 MedlinePlus 向估计 5 亿访客提供可信的健康信息，并通过 MedlinePlus Connect 的电子健康记录 (EHR) 系统向近 2 亿患者提供可信的健康信息。过渡后的 MedlinePlus 连接到云，以便更快、更可靠地访问关键健康信息。提供评估在线健康信息的信息。支持健康数据标准的开发和使用协调 HHS 的临床数据标准，并提供资源以促进临床健康数据的互操作性和联邦 EHR 互操作性要求的确认。通过扩展 SNOMED 国际版和美国扩展版分别包含 7,000 多个和 300 多个概念，更新了健康数据标准资源。向 LOINC 添加了 600 多个代码，并通过 200 多个概念扩展了 RxNorm 药物术语。在 MeSH 中添加了 1,700 多个联邦认可的美洲印第安人和阿拉斯加原住民部落名称以及指定为“人口群体”的种族和民族语言少数术语。增强了价值集权威中心的新功能，以支持价值集的维护、比较、更改跟踪和使用统计。增强了 NIH 通用数据元素 (CDE) 存储库，以鼓励在 NIH 资助的生物医学研究中采用 CDE。将 NHLBI 评估 COVID-19 和治疗策略计划网络合作网络中的 12 个 CDE 添加到 NIH 认可的 CDE 中，并策划了 4 个 COVID 和 5 个非 COVID 相关的 CDE 提交，为 NIH 认可做准备，其中包括来自 NIH 的 30 个 CDE 提交美国国立卫生研究院科学合作组织致力于减少健康差异和人工智能偏见。加强公众参与并打造多元化的劳动力队伍支持少数族裔服务机构图书馆了解和使用 All of Us 研究人员工作台。通过学术图书馆的 All of Us 数据培训和参与计划，提供有关用户行为、访问 All of Us 数据和数据参与技术的培训。通过举办 7 位 Michael E. DeBakey 医学史研究员来支持使用 NLM 历史收藏的研究，提高公众对 NLM 资源的认识，举办 Ada Lovelace 计算健康讲座，重点介绍生物医学研究中的计算创新工作，举办 9 场历史讲座，促进对 NLM 的认识和使用用于研究的历史收藏，以及 38 个在线展览。

项目成果

期刊论文数量（334）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

How to publish a new fungal species, or name, version 3.0.

DOI：
10.1186/s43008-021-00063-1
发表时间：
2021-05-03
期刊：
IMA fungus
影响因子：
5.4
作者：
Aime MC;Miller AN;Aoki T;Bensch K;Cai L;Crous PW;Hawksworth DL;Hyde KD;Kirk PM;Lücking R;May TW;Malosso E;Redhead SA;Rossman AY;Stadler M;Thines M;Yurkov AM;Zhang N;Schoch CL
通讯作者：
Schoch CL

RefSeq curation and annotation of antizyme and antizyme inhibitor genes in vertebrates.