Core C (Informatics and Computation Core)

核心C（信息学和计算核心）

• 批准号: 10331576
• 负责人: Sudin Bhattacharya
• 金额: $ 33.22万
• 依托单位: MICHIGAN STATE UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2021
• 资助国家: 美国
• 起止时间: 2021-12-22 至 2026-11-30
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10331576
• 关键词: Adipose tissue; Animals; Bioinformatics; Biological; Blood Vessels; Cell model; Cells; Communication; Computer Models; Cost Savings; Data; Data Analyses; Data Set; Development; Diet; Disease; Educational workshop; Generations; Genes; Genetic Transcription; Genome Data Analysis Network; Goals; Health; Health Transition; High Fat Diet; Hour; Human Resources; Hypertension; Individual; Informatics; Maps; Modeling; Neighborhoods; Nervous system structure; Onset of illness; Pathway Analysis; Play; Program Research Project Grants; Regulator Genes; Research Personnel; Role; Services; Signal Transduction; Testing; Tissues; Training; Visualization; Visualization software; base; cell type; computerized tools; data visualization; experimental study; genomic data; hypertensive; immune function; in silico; mechanical force; member; nerve supply; novel; open source; pressure; response; single-cell RNA sequencing; theories; tool; transcriptome sequencing; web portal

Project Summary – Core C The Informatics and Computation Core (Core C) will play a three-pronged role in this Program Project Grant (PPG) investigating the role of perivascular adipose tissue (PVAT) as a central integrator of vascular health: i) service, ii) training and iii) development. Under the service component, Core C will oversee generation of, analyze, and visualize all bulk and single-cell genomic data required by Projects I-IV. Genes that are altered in the transition from health to high fat diet-induced hypertension in the principal cell types of the PVAT compartment will be identified, and trajectories of cellular perturbation along the health to disease continuum will be mapped. Voluntary training will be provided to all Project and Core personnel and trainees in use of cutting- edge tools in biological data visualization and network analysis. The development component will focus on building a predictive computational model of the transition of PVAT from a healthy state to an inflamed state in diet-associated hypertension, based on critical state transition theory. The model will integrate findings on: i) mechanisms of communication of vascular pressure to PVAT and the response of PVAT to this pressure (Project I); ii) the extent of innervation and the role of the nervous system in the functioning of PVAT in health and disease (Project II); iii) the effect of the PVAT microenvironment on immune function in the vascular neighborhood (Project III); and iv) the effect of mechanical forces on the adipogenic potential of PVAT (Project IV). This in silico model will provide a unified quantitative framework to generate and test novel hypotheses about the role of PVAT in health and under hypertension. The aims of Core C will be accomplished using free, open-source computational tools. Models and analysis scripts will be reproducibly recorded and shared across the PPG and beyond through open online portals like Github. Core C will also be able to provide significant cost savings to the PPG by centralizing execution and analysis of bulk and single-cell RNA-Seq experiments from all projects.

项目摘要 - 核心C 信息学和计算核心（核心C）将在该计划项目赠款中扮演三管制角色 （PPG）研究血管周围脂肪组织（PVAT）作为血管健康的中央整合物的作用：I） 服务，ii）培训和iii）发展。在服务组件下，核心C将监督生成， 分析项目I-IV所需的所有批量和单细胞基因组数据。改变的基因 PVAT的主要细胞类型中从健康到高脂肪饮食引起的高血压的过渡 将确定隔室，并将沿着疾病连续体的健康轨迹扰动轨迹将 被映射。将向所有项目和核心人员和受训者提供自愿培训，以使用切割 生物数据可视化和网络分析中的边缘工具。开发组件将重点放在 建立一个从健康状态过渡到发炎状态的预测计算模型 基于临界状态过渡理论，与饮食相关的高血压。该模型将在：i）上整合发现结果 血管压力与PVAT的通信以及PVAT对此压力的反应机制（项目 我）; ii）神经支配程度和神经系统在PVAT在健康和疾病中的功能中的作用 （项目II）; iii）PVAT微环境对血管邻域免疫功能的影响 （项目III）； iv）机械力对PVAT的成脂潜力的影响（项目IV）。这是 硅模型将提供一个统一的定量框架，以生成和测试有关该角色的新假设 健康和高血压下的PVAT。 Core C的目的将使用免费的开源计算工具来实现。模型和分析 脚本将通过PPG及其他方式通过开放的在线门户进行重复记录和共享 github。核心C还将能够通过集中执行和 对所有项目的批量和单细胞RNA-seq实验的分析。