Translator Red Knowledge (TReK)

理由：本申请的目标将最有效和最高效地实现， 多PI计划翁博士、杜蒙蒂埃博士和塔博士是各自领域公认的领导者， 是确保项目目标在最大程度上得以实现的最佳选择。 可行的有效方式。 治理和组织结构：翁博士、杜蒙蒂埃博士和塔博士将分享 领导平等的项目，每个人都将负责具体的组织 功能协调发展的具体而言，Dr. Weng将担任联系PI。虽然项目的所有部分 将从所有PI获得输入，主要职责将划分如下： Drs.翁和塔将共同监督以下任务：1）COHD的所有改进 数据分析管道和COHD API，包括时间分析，处理临床记录， 和COHD复制研究; 2）发展患者的表征学习方法 向量嵌入和概念向量嵌入，包括下游分析，如 疾病亚型;以及3）根据来自 PICO NLP解析器。 博士Dumontier将监督以下任务：1）开发和部署 Data2Services; 2）开发SPARQL Reasoner API接口，以暴露BioLink兼容性 RDF作为Reasoner API; 3）开发用于查询和 导航知识图谱;以及4）DSRI OpenShift集群的管理。 翁博士、杜蒙蒂埃博士和塔博士将共同监督年度进展的准备工作 与供资组织的报告和其他通信。 PI将共同管理政策问题，并与院长和其他 管理人员，以促进该计划的成功。 沟通计划：虽然PI经常以非正式的方式（在研讨会上，在其他 联合活动，并作为同事和朋友），他们还将研究所正式每月的网站 召开会议，讨论研究设计和程序，审查里程碑，解释 所有的行政责任，所有的行政责任。PI还计划经常沟通 通过电子邮件、电话和亲自处理必须立即解决的问题， 审查倡议的成功，并根据需要进行方案调整。 冲突解决：冲突将首先通过博士之间的联席会议解决。 翁，杜蒙蒂埃和塔。如果发生潜在冲突， 代表PI的管理人员应会面并真诚地尝试解决任何争议， 因解释、履行或违反《公约》而产生的或与之有关的索赔或争议 这种分歧。但是，如果部门管理员未能解决 如果在30个工作日内出现分歧，则应将该分歧提交给 向指定的高级管理人员提出决议（例如，（二）当事人有下列情形之一的; 但是谁没有直接参与到争论中。 知识产权：由于NCATS生物医学数据翻译程序的原则是 开发开源工具，所有产品都将以开源许可证发布。 资源分配：尽可能平均分配资源。 两个机构（哥伦比亚和马斯特里赫特大学）之间的划分符合 应用程序中指出的方法。 主要研究者位置变更：如果任何主要研究者转移到另一家机构，所有可能的尝试都将被取消。 将有关部分的资助金转拨予新院校。如果新的位置是 无法接受或支持研究项目，则将选择替代PI， 如果可能的话，继续执行这个项目。

Rationale: The goals of this application will be most effectively and efficiently met with a multiple PI plan. Drs. Weng, Dumontier, and Ta are recognized leaders in their fields and are excellent choices to ensure that the goals of the project are carried out in the most effective manner possible. Governance and Organization Structure: Drs. Weng, Dumontier, and Ta will share leadership equally for the project and each will take responsibility for specific organizational functions. Specifically, Dr. Weng will serve as the Contact PI. While all portions of the project will have input from all PIs, primary responsibilities will be split as follows: Drs. Weng and Ta will jointly oversee the following tasks: 1) all enhancements of the COHD data analysis pipeline and COHD API, including temporal analyses, processing clinical notes, and COHD replication studies; 2) development of representation learning methods for patient vector embedding and concept vector embedding, including downstream analyses like disease subtyping; and 3) creating the RCT PICO Knowledge Provider from output from the PICO NLP Parser. Dr. Dumontier will oversee the following tasks: 1) development and deployment of Data2Services; 2) development of the SPARQL Reasoner API interface to expose BioLink-compliant RDF as a Reasoner API; 3) development of user interfaces for querying and navigating knowledge graphs; and 4) management of the DSRI OpenShift cluster. Together, Drs. Weng, Dumontier, and Ta will oversee the preparation of the annual progress reports and other communications with the funding organization. PIs will work together to manage policy issues and to communicate with deans and other administrators to promote the success of the program. Communication Plan: While the PIs interact frequently in informal ways (at seminars, in other joint activities, and as colleagues and friends), they will also institute formal monthly web conferencing meetings to discuss study design and procedures, review milestones, interpret outcomes, and all administrative responsibilities. The PIs also plan to communicate frequently by e-mail, phone, and in person as issues arise that must be addressed promptly and also to review the success of initiatives and make programmatic adjustments as needed. Conflict Resolution: Conflicts will be resolved first through joint meetings between Drs. Weng, Dumontier and Ta. If a potential conflict develops, the appropriate departmental administrators representing the PIs shall meet and attempt in good faith to settle any dispute, claim or controversy arising out of or relating to the interpretation, performance or breach of this disagreement. However, if the departmental administrators fail to resolve the disagreement within thirty business days, then such disagreement shall be referred for resolution to a designated senior executive (e.g., deans) of the parties who has the authority to settle the disagreement but who is not directly involved in the disagreement. Intellectual Property: Since the NCATS Biomedical Data Translator program is principled on developing open-source tools, all products will be released with open-source licenses. Distribution of Resources: To the extent possible, the distribution of resources will be evenly divided between the two institutions (Columbia and Maastricht University) in line with the methods indicated in the application. Change in PI Location: If any PI moves to another institution, all possible attempts will be made to transfer the relevant portion of the grant to the new institution. If the new location is unable to accept or support the research project, then an alternative PI will be chosen to pursue that part of the project, if possible.