Reactome: An Open Knowledgebase of Human Pathways.

Reactome：人类通路的开放知识库。

• 批准号: 10341517
• 负责人: PETER G DEUSTACHIO
• 金额: $ 152.98万
• 依托单位: ONTARIO INSTITUTE FOR CANCER RESEARCH
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-08-18 至 2027-05-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10341517
• 关键词: Adoption; Biological; Biological Process; Clinical Research; Code; Communities; Controlled Vocabulary; Data; Data Analyses; Data Science; Data Scientist; Databases; Development; Disease; Disease Pathway; Doctor of Philosophy; Ensure; Feedback; Funding; Genes; Genetic Variation; Genomics; Graph; Growth; Human; Infection; Infrastructure; Knowledge Discovery; Lead; Literature; Machine Learning; Malignant Neoplasms; Manuals; Modeling; Molecular; Online Systems; Ontology; Pathologic Processes; Pathway Analysis; Pathway interactions; Peer Review; Pharmaceutical Preparations; Physiological Processes; Process; Proteins; Proteomics; Publications; Reaction; Readability; Research; Research Personnel; Resources; Scientist; Software Tools; Students; System; Technology; Tissues; Translational Research; United States National Institutes of Health; Update; Visualization software; Work; base; biological research; cell type; computerized tools; computing resources; data modeling; data visualization; drug discovery; experience; gene product; improved; interoperability; knowledge graph; knowledgebase; member; novel strategies; open data; open source; outreach; predictive modeling; protein function; repository; screening; text searching; tool; web site

Project Summary/Abstract We seek renewal of the core operating funding for The Reactome Knowledgebase. Reactome is a manually curated, peer-reviewed open access biological pathway knowledgebase that can be publicly used and redistributed by all biological research community members. The Reactome knowledgebase is used by academic, nonprofit and for-profit entities worldwide. Specifically, Reactome is employed by genomics and proteomics researchers, clinicians, geneticists, and molecular biologists to interpret the results of large-scale omics screening projects, by data scientists and bioinformaticians to develop novel approaches for knowledge discovery and mining, and by systems biologists to build predictive models of normal and disease pathways for drug discovery. Our curators, PhD-level scientists, work closely with independent investigators within the community to assemble human- and machine-readable descriptions of human biological pathways manually using dedicated software tools. Each pathway is checked and peer-reviewed prior to publication to ensure its factual accuracy and compliance with the data model. A system of evidence tracking ensures that all assertions are supported by the primary literature. Reactome uses community-standard controlled vocabularies and ontologies to increase interoperability across resources. Pathways are reviewed and updated regularly. Reactome pathways are available on our web site for browsing, downloading, and manipulation by in-house and third-party online analysis tools. The project is highly cited in the literature, has been used repeatedly to make significant biological discoveries, and is incorporated into a large number of high-impact computational tools and resources. Over the next five years, we will: (1) efficiently curate normal and disease processes, and effects of genetic variation and drugs on protein function; (2) improve pathway data analysis and input tools to increase the curation efficiency and the utility of Reactome data in large-scale biological data science projects; (3) enhance the open Reactome platform; and (4) conduct active outreach efforts to facilitate user engagement, community feedback, and adoption of Reactome.

项目总结/摘要 我们寻求为Reactome知识库的核心运营资金续期。Reactome是一个手动 策划，同行评审的开放获取生物途径知识库，可以公开使用， 由所有生物研究社区成员重新分发。Reactome知识库用于 全球的学术、非营利和营利实体。具体来说，Reactome被基因组学所采用， 蛋白质组学研究人员，临床医生，遗传学家和分子生物学家解释大规模的结果， 组学筛选项目，由数据科学家和生物信息学家开发新的知识方法 发现和挖掘，并由系统生物学家建立正常和疾病途径的预测模型， 药物发现我们的策展人，博士级科学家，与独立调查人员密切合作， 社区手动收集人类生物学途径的人类和机器可读描述 使用专用的软件工具。在出版之前，每个途径都经过检查和同行评审，以确保其 事实准确性和符合数据模型。证据跟踪系统确保所有断言 都得到了主要文献的支持Reactome使用社区标准控制词汇表， 本体论，以提高跨资源的互操作性。定期审查和更新途径。 Reactome途径可在我们的网站上浏览，下载，并由内部操作 第三方在线分析工具。该项目在文献中被高度引用，已被反复用于 做出重大的生物学发现，并被纳入了大量的高影响力的计算 工具和资源。在接下来的五年里，我们将：（1）有效地管理正常和疾病过程， 遗传变异和药物对蛋白质功能的影响;（2）改进途径数据分析和输入工具， 提高Reactome数据在大规模生物数据科学项目中的管理效率和效用; (3)增强开放的Reactome平台;以及（4）积极开展外联工作，以促进用户参与， 社区反馈和Reactome的采用。