Core 4 Education and Outreach

核心 4 教育和外展

• 批准号: 8045866
• 负责人: ISAAC S. KOHANE
• 金额: $ 27.06万
• 依托单位: BRIGHAM AND WOMEN'S HOSPITAL
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-09-01 至 2014-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8045866
• 关键词: Academia; Address; Adopted; Agreement; Area; Arts; Asthma; Bioinformatics; Biological; Biomedical Computing; Books; Boston; Businesses; Case Study; Center for Translational Science Activities; Clinical; Clinical Data; Clinical Research; Code; Collaborations; Communication; Communities; Comorbidity; Computer software; Data; Data Set; Development; Diabetes Mellitus; Discipline; Disease; Docking; Documentation; Education and Outreach; Educational Curriculum; Educational process of instructing; Educational workshop; Electronic Health Record; Electronics; Elements; Ensure; Evaluation; Event; Faculty; Funding; Generations; Genetic; Genome; Genomics; Goals; Group Meetings; Growth; Health; Healthcare; Hearing; Huntington Disease; Hypertension; Immersion Investigative Technique; Individual; Industry; Informatics; Institutes; Institution; International; Internet; Learning; Letters; Libraries; Lymphoma; Mails; Major Depressive Disorder; Measures; Medical; Mentors; Modeling; National Human Genome Research Institute; Natural Language Processing; Nuts; Obesity; Online Systems; Paper; Pharmaceutical Preparations; Physicians; Play; Positioning Attribute; Postdoctoral Fellow; Privacy; Process; Publications; Qualifying; Ramp; Records; Research; Research Design; Research Personnel; Research Project Grants; Resources; Rheumatoid Arthritis; Role; Running; Schedule; Scholarship; Schools; Science; Scientist; Secure; Series; Services; Smoking Status; Solutions; Source; Staging; Structure; Students; Support Groups; System; Techniques; Technology; Thinking; Training; Training Programs; Translational Research; Travel; Underrepresented Minority; Update; Urticaria; Woman; Work; base; career; clinical application; clinical care; college; computer infrastructure; deafness; design; experience; graduate student; health disparity; improved; innovation; insight; interest; meetings; member; next generation; novel; outreach; phenome; post-doctoral training; programs; skills; social; success; symposium; text searching; tool; trafficking; university student; web site; willingness; working group

In this, our Education and Outreach Core, we plan to sustain and expand the multiple efforts begun in our first cycle to broadly contribute to the "national computational infrastructure" by (1) growing the base of scientists adept at seeing across the horizon to create innovative intellectual approaches and methodological solutions to our national health care agenda and (2) to broadly enable the community to effectively use our software platform together with the I2b2 discovery model to advance research using existing clinical data and biological byproducts. Our contribution to the next generation of computational scientists begins with our intensive, formally organized Summer Institute In Bioinformatics and Integrative Genomics. Each summer we accept 12-16 undergraduate college students with demonstrated Interest in either bioinformatics or integrative genomics for an intensive immersion experience in the medical applications of these skill sets when combined as an interdiscipline. Our goal is to reach students at the formative stage of their career planning and by exposing them to the potential of a career applying hard science skills (and innovative thinking) to medical problems. Instead of pure didactic information transferral, we ask physicians and researchers already working in this space to give high level tutorials regarding "their" disease and how bioinformatics had made a difference in the understand and treatment of that disease. It is unbelievably powerful for students to hear about the genetics of deafness, hypertension, diabetes, Huntington's Disease, lymphoma, asthma, rheumatoid arthritis, major depression and bipolar disease and the advancements in therapy made possible by a disciplined analysis of the volumes of data emerging from well designed genetic and genomic studies. Students are simultaneously engaged in a mentored research project with a mentor carefully chosen to match their personal interests and the goals of the program. We have graduated over 50 students, including 29 women and 25 students from under represented minorities. 28 of the 32 College grads are now in graduate school and most are woridng in the bioinformatics or related concentrations. We will put 60 more students through this program over the next four years and anticipate seeing many of them emerge from the pipeline ready and eager to carry the flag. As to our second community, those who use our software platform for translational research, we plan to continue with our support and outreach efforts to ensure the most effective use thereof. As discussed elsewhere, the unanticipated advent ofthe NIH-funded Centers for Translational Science (CTSAs) and the mandate to develop informatics systems to better organize and use clinical data created an unexpected eariy demand for the I2b2 product. We were neither funded for nor prepared to provide support services to those wishing to implement our eariy releases but recognized even so the importance of building a community that could leverage their Individual capabilities and collaborate to serve the whole. We formed and now support an Academic Users' Group that is 115 strong and growing. We convene and will continue to do so, biannual business and working group meetings ofthis group at which we provide updates on what i2b2 is doing, both as regards novel development and for solving issues raised by the membership as they install and use the software. More recently, we have users sufficiently advanced that we request presentations on use cases and use the ensuing dialogue to Identify what the community most wants to see from us. The networking among them, both at meetings and Independently thereafter as a result of knowing who Is doing what with what, etc., has and should continue to greatly leverage existing capabilities, especially when these are limited. As is apparent In the letters of support from this group, the collaborative support afforded by the network has been an essential component to success for many of the CTSAs. We anticipate that the AUG will continue to play a critical role and propose in this next period to ramp up our active support In several ways. Based on the volume of traffic seeking answers to basic implementation questions, we will develop a series of web-based tutorials that will be available on-line and will span the distance from someone shopping for basic insight to what "i2b2" is to those actually interested in using repurposed clinical care data for genome-phenome association work. The AUG will actively collaborate and participate In this effort. We are especially pleased to propose continuation and expansion of our efforts with the Natural language processing community, which as a group had long been stymied by the dearth of actual clinical records on which to practice their art. Thanks to one of our bright young stars. Dr. Ozlem Uzuner, and the willingness of Partners HealthCare to share a corpus of deidentified clinical notes, i2b2 has hosted three Shared Task in Natural Language Processing for Clinical Data and Workshops. At least a couple dozen teams have joined each year to compete on problems of smoking status, de-identification capability, obesity definition, identification of co-morbidities, and most recently medication status. Papers and many new tools have emerged from this effort, which, as certified by letters from the international community (Research Plan Section 1.6.2), is one they hope will continue. We would like to expand this activity to include other groups In the planning and execution and to add data from other Institutions to the corpus now freely available on our website. Given the growing need for sophisticated NLP tools by the CTSA and other academic health centers, we would like to work with the community to offer an advanced training program and use the I2b2 platform and tools suite as the substrate for this. We will of course also continue to sponsor symposia and other national fora designed to "widen the use of Electronic Health Record data for discovery research" and anticipate that increasingly we will be able to widen the repertoire of investigators with compelling stories to tell.

在我们的教育和外展核心中，我们计划维持和扩大在第一个周期中开始的多项努力，通过以下方式广泛为“国家计算基础设施”做出贡献：(1) 扩大善于跨越地平线的科学家基础，以创建创新的智力方法和方法论解决方案 我们的国家医疗保健议程以及 (2) 让社区广泛有效地使用我们的软件 平台与 I2b2 发现模型一起使用现有的临床数据和生物数据推进研究 副产品。 我们对下一代计算科学家的贡献始于我们密集的、正式组织的 生物信息学和综合基因组学暑期学院。每年夏天我们都会招收 12-16 名本科生 对生物信息学或综合基因组学表现出兴趣的大学生 当这些技能组合作为跨学科时，在医疗应用中获得沉浸式经验。我们的 目标是让处于职业规划形成阶段的学生接触到潜在的机会 将硬科学技能（和创新思维）应用于医学问题的职业生涯。而不是纯粹的说教 信息传递，我们要求已经在该领域工作的医生和研究人员提供高水平的信息 关于“他们的”疾病以及生物信息学如何在理解和理解方面产生影响的教程 治疗那种疾病。对于学生来说，了解耳聋的遗传学具有令人难以置信的力量， 高血压、糖尿病、亨廷顿氏舞蹈病、淋巴瘤、哮喘、类风湿性关节炎、重度抑郁症和双相情感障碍，以及对治疗量的严格分析所带来的治疗进展 来自精心设计的遗传和基因组研究的数据。学生们同时从事 由精心挑选的导师指导研究项目，以符合他们的个人兴趣和目标 程序。我们已毕业 50 多名学生，其中包括 29 名女性和 25 名来自弱势群体的学生 少数民族。 32 名大学毕业生中有 28 人现在正在读研究生，其中大多数从事生物信息学或 相关浓度。我们将在未来四年内让另外 60 名学生参加该计划 预计会看到他们中的许多人准备好并渴望扛起旗帜。 至于我们的第二个社区，即那些使用我们的软件平台进行转化研究的社区，我们计划 继续我们的支持和外展努力，以确保最有效地利用这些资源。正如所讨论的 在其他地方，美国国立卫生研究院 (NIH) 资助的转化科学中心 (CTSA) 和 开发信息学系统以更好地组织和使用临床数据的任务创造了意想不到的早期结果 对 I2b2 产品的需求。我们既没有资助也没有准备为这些人提供支持服务 希望实施我们的早期版本，但仍然认识到建立一个社区的重要性 可以利用他们的个人能力并协作为整体服务。我们成立并现在支持 学术用户组已有 115 名成员，并且还在不断壮大。我们每年两次召开会议并将继续这样做 该小组的业务和工作组会议，我们在会上提供有关 i2b2 正在做的事情的最新信息，既作为 关注新的发展并解决会员在安装和使用时提出的问题 软件。最近，我们的用户已经足够先进，我们要求提供有关用例的演示，并且 通过随后的对话来确定社区最希望从我们这里看到什么。之间的网络 他们，无论是在会议上还是在会议后独立地进行，因为知道谁在做什么、做什么等， 已经并且应该继续充分利用现有能力，尤其是在这些能力有限的情况下。按原样 显然，在该团体的支持信中，网络提供的协作支持已 对于许多 CTSA 来说，这是成功的重要组成部分。我们预计 AUG 将继续发挥作用 发挥关键作用，并建议在下一个时期以多种方式加大我们的积极支持。 根据寻求基本实施问题答案的流量，我们将制定一系列 基于网络的教程将在线提供，并且跨越购买基本产品的人的距离 深入了解“i2b2”对于那些真正有兴趣将重新利用的临床护理数据用于基因组-表组的人来说是什么 协会工作。 AUG将积极配合并参与这项工作。 我们特别高兴地建议继续和扩大我们在自然语言方面的努力 处理社区，作为一个群体长期以来一直因缺乏实际临床记录而受到阻碍 来练习他们的艺术。感谢我们一位耀眼的年轻明星。 Ozlem Uzuner 博士以及 合作伙伴 HealthCare 共享未识别的临床记录语料库，i2b2 已在 临床数据自然语言处理和研讨会。至少有几十支球队加入 每年就吸烟状况、去识别能力、肥胖定义等问题展开竞争， 确定合并症以及最近的用药状况。论文和许多新工具 这项工作的成果得到了国际社会的信函的证明（研究计划部分） 1.6.2)，他们希望能够继续下去。我们希望扩大这项活动以包括其他群体 规划和执行，并将其他机构的数据添加到语料库中，现在可以在我们的网站上免费获取 网站。鉴于 CTSA 和其他学术健康中心对复杂 NLP 工具的需求不断增长， 我们希望与社区合作提供高级培训计划并使用 I2b2 平台和 工具套件作为其基础。 当然，我们还将继续主办旨在“扩大使用 用于发现研究的电子健康记录数据”，并预计我们将能够越来越多地扩大 调查人员的全部技能，讲述令人信服的故事。