TOPIC 408: TOOLS AND TECHNOLOGIES FOR VISUALIZING MULTI-SCALE DATAPROJECT TITLE: SIMBIOSYS PHENOSCOPE: A CLOUD-ENABLED, WEB-BASED PORTAL FOR RAW AND

主题 408：用于可视化多尺度数据的工具和技术项目名称：SIMBIOSYS PHENOSCOPE：支持云的、基于 Web 的原始和数据门户

• 批准号: 10700371
• 负责人: JOSEPH PETERSON
• 金额: $ 200万
• 依托单位: SIMBIOSYS, INC.
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-09-15 至 2024-09-14
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10700371
• 关键词: Algorithms; Case Study; Clinical; Contracts; Data; Data Element; Development; Dimensions; Documentation; Engineering; Environment; Genomics; Heterogeneity; Individual; Internet; Learning; Light; Malignant Neoplasms; Medical Imaging; Outcome; Pathway interactions; Phase; Prognostic Marker; Research; Research Personnel; Security; Surrogate Markers; Techniques; Technology; Testing; Tissues; behavioral phenotyping; biomarker development; biomarker discovery; data exploration; data repository; digital pathology; effective therapy; model development; novel; pathology imaging; pharmacodynamic biomarker; phenomics; predictive marker; simulation; single cell sequencing; spatiotemporal; tool; tumor; web portal

Heterogeneity among cancers and differences within individual tumors continue to challenge the efforts to develop effective therapies. A multitude of data such as single cell sequencing, digital pathology, and medical imaging are being generated to captures heterogeneityacross multiple scales. However, data is siloed and connections between scales remains elusive. SimBioSys PhenoScope is a novel research tool to harmonize these disparate data elements, connecting the genomic, cellular/pathway, microscropic tissue environment, and tissue scales. The tool is being developed for use in biomarker discovery. Combining state-of-the-artmachine learning, dimensionality reduction techniques, novel spatio-temporal simulation algorithms, and support for public data repositories, PhenoScope provides a new means of assessing factors contributing to a cancer's phenotypical behavior, thereby allowing elucidation of new pharmacodynamic, prognostic, predictive,and surrogate biomarkers. During the Phase II contract, a beta version of the application will be developed. Specific activities will include: 1) support for clinical outcomes data, 2) capabilities for users to bring their own data, 3) an interactive scripting/data exploration environment, 4) compatibility and cloud deployment enhancements, and 5) beta testing with customers. This technology enables researchers to study cancer in a new light, and leads the way in to the upcoming phenomics era.

癌症之间的异质性和个体肿瘤内的异质性继续挑战开发有效治疗的努力。正在生成大量数据，如单细胞测序、数字病理学和医学成像，以捕获多个尺度上的异质性。然而，数据是孤立的，规模之间的联系仍然难以捉摸。SimBioSys PhenoScope是一种新型研究工具，可协调这些不同的数据元素，连接基因组，细胞/通路，显微组织环境和组织尺度。该工具正在开发用于生物标志物发现。结合最先进的机器学习，降维技术，新颖的时空模拟算法和对公共数据库的支持，PhenoScope提供了一种评估癌症表型行为因素的新方法，从而可以阐明新的药效学，预后，预测和替代生物标志物。在第二阶段合同期间，将开发应用程序的测试版。具体活动将包括：1）支持临床结果数据，2）用户能够带来自己的数据，3）交互式脚本/数据探索环境，4）兼容性和云部署增强，以及5）与客户一起进行beta测试。这项技术使研究人员能够从新的角度研究癌症，并引领即将到来的表型组学时代。