Systems Bioinformatics Core

系统生物信息学核心

• 批准号: 10518175
• 负责人: CRISTIAN COARFA
• 金额: $ 7.95万
• 依托单位: UNIVERSITY OF TX MD ANDERSON CAN CTR
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-09-20 至 2027-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10518175
• 关键词: ATAC-seq; Advisory Committees; Big Data; Bioinformatics; Biological Markers; Cell Line; ChIP-seq; Cisplatin; Code; Collaborations; Communities; Consult; Custom; Data; Data Analyses; Data Set; Development; Docking; Drug resistance; Ensure; Funding Agency; Generations; Genomics; Head and Neck Squamous Cell Carcinoma; Human; Individual; Metadata; Methodology; Modeling; Molecular and Cellular Biology; Multiomic Data; Neoplasm Circulating Cells; Policies; Process; Reporting; Reproducibility; Research; Research Personnel; Research Project Grants; Resistance; Resistance development; Site; Solid Neoplasm; Source Code; System; Technology; Time; United States National Institutes of Health; University of Texas M D Anderson Cancer Center; Visualization; Work; advanced analytics; complex data; data acquisition; data dissemination; data integration; data pipeline; data sharing; design; human data; metabolic imaging; metabolomics; mid-career faculty; multiple omics; open source; prevent; programs; response; sharing platform; single-cell RNA sequencing; success; synergism; transcriptomics

Systems Bioinformatics Core (Core B) SUMMARY H-CARR is designed to interrogate the genomic, transcriptomic and metabolomic drivers of acquired cisplatin resistance in HNSCC. Projects 1, 2 and 3 are designed to synergize with the ultimate dual objective of: 1) identifying reliable biomarkers of cisplatin resistance and 2) developing strategies for preventing its development or acquisition. Project 1 will generate steady state and flux metabolomic data which will be integrated with the genomic and transcriptomic data generated in Project 2. Together, the datasets will then be validated against human data acquired using non-invasive metabolic imaging and genomic and transcriptomic analysis of human HNSCC circulating tumor cells (CTCs). Core B is envisioned as a Systems Bioinformatics Core which will coalesce the datastreams from all 3 Projects into one coherent multi ‘omics understanding of cisplatin response and development of resistance. Core B, led by Dr. Coarfa is tasked with performing the complex data analysis proposed in each individual Project and developing pipelines for data acquisition, analysis and interpretation which can be rapidly deployed within H- CARR and the broader ARTNet scientific community. Core B, in collaboration with Core A (Administrative) will develop a near real time reporting system for both model (PDX, cell line) generation, analytical pipelines and raw and processed data sharing with other investigators. The Core will leverage existing institutional expertise with big data analysis, along with Dr. Coarfa’s established scientific relationships with the other investigators, to develop a state of the art analytical platform that can be deployed to characterize and understanding acquired resistance across multiple solid tumors and systemic agents.

系统生物信息学核心（核心 B）摘要 H-CARR 旨在探究获得性顺铂的基因组、转录组和代谢组驱动因素 项目 1、2 和 3 旨在与以下最终双重目标协同作用：1) 识别顺铂耐药性的可靠生物标志物，2) 制定预防其发展的策略 项目 1 将生成稳态和通量代谢组数据，这些数据将与 项目 2 中生成的基因组和转录组数据。然后将一起验证数据集 使用非侵入性代谢成像以及人类基因组和转录组分析获得的人类数据 HNSCC 循环肿瘤细胞 (CTC)。 核心 B 被设想为系统生物信息学核心，它将合并来自所有 3 个方面的数据流 项目对顺铂反应和耐药性发展的一个连贯的多组学理解核心。 B，由 Coarfa 博士领导，负责执行每个单独项目中提出的复杂数据分析， 开发数据采集、分析和解释的管道，可以在 H- 中快速部署 CARR 和更广泛的 ARTNet 科学界核心 B 将与核心 A（行政）合作。 开发一个近乎实时的报告系统，用于模型（PDX、细胞系）生成、分析管道和 与其他研究人员共享原始和处理后的数据将利用现有的机构专业知识。 通过大数据分析，以及 Coarfa 博士与其他研究人员建立的科学关系， 开发最先进的分析平台，可用于表征和理解所获得的信息 对多种实体瘤和全身药物的耐药性。