EVIDARA: Automated Evidential Support from Raw Data for relay agents in Biomedical KG Queries

EVIDARA：生物医学 KG 查询中中继代理的原始数据自动证据支持

• 批准号: 10330633
• 负责人: SERGIO E BARANZINI
• 金额: $ 43.73万
• 依托单位: INSTITUTE FOR SYSTEMS BIOLOGY
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-01-24 至 2022-01-23
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10330633
• 关键词: Agreement; Arbitration; Budgets; Cohort Studies; Communication; Conflict (Psychology); Data; Data Set; Ensure; Goals; Institution; Intellectual Property; Joints; Knowledge; Medical; Multiomic Data; Nature; Office of Administrative Management; Outcome; Persons; Phase; Pilot Projects; Play; Principal Investigator; Publications; Research; Resources; Role; System; Technology Transfer; Testing; Work; base; cohort; computerized tools; design; knowledge graph; member; multiple omics; novel; product development; programs

1. Rationale for the joint effort as a multi-PI (MPI) team. At the core of the is pilot project is the combination of two sets of resources and expertise that each of the two principal investigators (PIs), Dr. Sergio Baranzini (UCSF) and Dr. Sui Huang (ISB) will contribute to develop, test and deliver a computational tool (“Automatic Relay Agent”, ARA) as defined by the FOA of Biomedical Translator program of NCATS as a milestone for the “First Segment” (January- March, 2020). The ARA envisioned by this team is EVIDARA, a system that extracts knowledge from a knowledge graph (KG) and evaluates it against multi-omics raw data of a large cohort for evidential support. The evidenced-tested knowledge is then relaying it to the Biomedical Translator. The two resources that will be combined to build EVIDARA are: (i) A novel knowledge graph, SPOKE and (ii) a new genre of multi-omics data sets from scientific wellness studies. The two PIs will bring these two resources and thus play complementary role: Dr. Sergio Baranzini, with his team at UCSF, is the developer of SPOKE and Dr. Sui Huang provides subject matter expertise in multiomics studies and has access to data from a cohort studied at ISB that he has been analyzing. Dr. Baranzini will bring expertise in all computational aspects of SPOKE and its new applications and Dr. Huang will also act as subject matter expert in multi-omics driven medical practice and research to guide product development and testing. 2. Goal of project and continuation. The pilot project id defined by the common goal of delivering the milestone product, EVIDARA as described in the proposal. If the pilot project is successful and this team is selected to continue to the “Second Segment” (an up to five project) the two PIs will work again as an MPI team and jointly design the expansion of the project into this second phase and jointly prepare the new research plan to NCATS. 3. Management and coordination. Dr. Huang, is the contact-MPI and will coordinate the project and directly communicate with Dr. Baranzini to ensure that both MPIs are kept informed about the project’s technical progress and all administrative matters. Each MPI will assume fiscal and administrative management of their own team, as reflected in the budget and consortium subcontract. Dr. Huang will be responsible for communication with NCATS Program manager team. The two MPIs and their team members and institutional collaborators agree to work jointly as a group towards the milestone product. Should publications result, both will be co-senior authors and their team members included as authors based on their contribution, following common academic practice. If there are any conflicts in the course of the project, both PIs and collaborators will meet in person and work in a spirit of cooperation to resolve any conflicts. Given that Drs. Huang and Baranzini have interacted academically for almost two decades, share the same scholarly perspective and the complementary and synergistic nature of their expertise that is required for the project it is highly unlikely a neutral arbitration committee would be required to resolve conflicts. 4. Intellectual Property. For intellectual property issue, the Technology Transfer Offices at each of the PI’s institutions will be responsible for agreements relating to the research and the outcome of the work.

1. 作为多 PI (MPI) 团队共同努力的理由。该试点项目的核心是 两位主要研究者各自的两组资源和专业知识的结合 (PI)、Sergio Baranzini 博士 (UCSF) 和 Sui Huang 博士 (ISB) 将致力于开发、测试和 提供生物医学 FOA 定义的计算工具（“自动中继代理”，ARA） NCATS 的翻译计划是“第一阶段”（2020 年 1 月至 3 月）的里程碑。这 该团队设想的ARA是EVIDARA，一个从知识中提取知识的系统 图（KG）并根据大型队列的多组学原始数据对其进行评估以获得证据支持。 然后，经过验证的知识将被传递给生物医学翻译器。两人 构建 EVIDARA 的资源包括： (i) 新颖的知识图谱、SPOKE 和 (ii) 来自科学健康研究的新型多组学数据集。两位PI将带来 这两种资源因此发挥互补作用：Sergio Baranzini 博士及其团队 UCSF 是 SPOKE 的开发者，Sui Huang 博士提供多组学方面的主题专业知识 研究并可以访问他一直在分析的 ISB 研究队列的数据。 Baranzini 博士将带来 SPOKE 及其新应用所有计算方面的专业知识 黄博士还将担任多组学驱动的医疗实践领域的主题专家 研究指导产品开发和测试。 2. 项目目标和延续。试点项目 ID 由共同目标定义 交付提案中描述的里程碑产品 EVIDARA。如果试点项目是 成功，该团队被选为继续“第二部分”（最多五个项目） 两位 PI 将再次作为 MPI 团队合作，共同设计该项目的扩展 第二阶段，共同向NCATS准备新的研究计划。 3、管理与协调。黄博士，MPI 联系人，将协调该项目 并直接与 Baranzini 博士沟通，以确保两个 MPI 均了解相关情况 项目的技术进展和所有行政事务。每个 MPI 将承担财政和 自己团队的行政管理，如预算和财团所反映 分包合同。黄博士将负责与NCATS项目经理的沟通 团队。两个 MPI 及其团队成员和机构合作者同意共同合作 作为一个团队迈向里程碑式的产品。如果发表结果，两人都将担任共同高级职务 作者及其团队成员根据其贡献被列为作者，如下 共同的学术实践。如果项目过程中出现任何冲突，PI 和 合作者将亲自会面并本着合作精神解决任何冲突。给定 那个博士。黄与巴兰齐尼在学术上交往近二十年，分享 相同的学术观点以及他们的专业知识的互补和协同性质 该项目需要中立仲裁委员会的可能性很小 解决冲突。 4. 知识产权。对于知识产权问题，各技术转移办公室 PI 的机构将负责与研究和结果相关的协议 的工作。