Comparative Approaches to Bio-knowledge Discovery

描述（由申请人提供）：在这个规划补助金，以建立一个卓越的计划在生物医学计算，宾夕法尼亚大学和费城儿童医院建议开发一个新的组织，将作为一个中央管道的生物医学计算研究捆绑在一起的三所学校和六个研究机构的活动。该组织将包括一个由内部和外部成员组成的科学指导委员会，负责监督研究活动，一个提供机构支持的监督委员会，一个管理日常活动的执行委员会，以及一个协调培训活动的教育办公室。该组织结构将在宾夕法尼亚基因组学研究所和宾夕法尼亚生物信息学中心的保护下产生，以利用现有资源。 将通过资助12个新的种子赠款（通过匹配资金）促进跨学科研究的互动，重点是生物医学知识发现的比较方法。在第一年，将资助四个项目：（1）比较基因组学的模式发现;（2）计算遗传学重建;（3）癌症研究的比较文本挖掘;和（4）镰状细胞病的比较信息学方法。在随后的几年里，将通过内部招标，在前四个项目中增加新的项目。科学指导委员会将审查这些提案，并将在第二年和第三年资助四个新项目。每年，将审查现有项目，并在规划赠款结束时，将审查所有项目，以便将其合并为少数影响力大的项目。 现有的计算教师和生物医学教师之间的新的互动将鼓励举行机会介绍务虚会，介绍研究人员从互补领域的生物问题和计算方法。教师基础教育研讨会将每月举行，其中基本概念，如“转录”将讨论在一个高度互动的格式。现有的生物信息学核心设施将增加额外的高性能计算硬件，支持基本的计算生物学工具的教学，以及一个协调从该赠款开发的软件工具的传播的设施。将补充现有的生物医学计算博士水平培训项目，为本科生和硕士生提供研究经验。

DESCRIPTION (provided by applicant): In this planning grant to establish a Program of Excellence in Biomedical Computing, the University of Pennsylvania and the Children's Hospital of Philadelphia propose to develop a new organization that will serve as a central conduit of biomedical computing research tying together the activities of three schools and six research institutes. The organization will consist of a scientific steering committee with internal and external members to oversee research activities, an oversight committee to provide institutional support, an executive committee to govern day-to-day activities, and an office of education to coordinate the training activities. The organizational structure will be generated under the umbrella of the Penn Genomics Institute and the Penn Center for Bioinformatics to leverage existing resources. Interdisciplinary research interactions will be promoted by funding 12 new seed grants (made possible by matching funds) focusing on comparative approaches to biomedical knowledge discovery. In the first year, four projects will be funded: (1) pattern discovery in comparative genomics; (2) computational phylogeny reconstruction; (3) comparative text mining for cancer research; and (4) comparative informatics approach to sickle-cell disease. In subsequent years, new projects will be added to the first four through an internal solicitation for proposals. The Scientific Steering Committee will review these proposals and four new projects will be funded in Years 2 and 3. Each year, existing projects will be reviewed and at the end of the planning grant, all projects will be reviewed for consolidation into a small number of high impact projects. New interactions between existing computational faculty and biomedical faculty will be encouraged by holding opportunity presentation retreats to introduce researchers from complementary fields to biological problems and computational methods. Faculty basic education seminars will be held monthly where basic concepts like "transcription" will be discussed in a highly interactive format. The existing core facility for bioinformatics will be augmented with additional high-performance computing hardware, support for teaching basic computational biology tools, and a facility to coordinate dissemination of software tools developed from this grant. An existing PhD level training program in biomedical computing will be supplemented to provide research experience for undergraduates and masters students.