MOSAIC: Biospecimen Core

MOSAIC：生物样本核心

• 批准号: 10729425
• 负责人: Kristin R Swanson
• 金额: $ 39.88万
• 依托单位: MAYO CLINIC ARIZONA
• 依托单位国家: 美国
• 财政年份: 2023
• 资助国家: 美国
• 起止时间: 2023-09-18 至 2028-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10729425
• 关键词: Academic Medical Centers; Aftercare; Arizona; Atlases; Biology; Biopsy; Cell Lineage; Cells; Clinic; Clinical; Complex; Computer Models; Consent; Data; Detection; Freezing; Glioblastoma; Glioma; Goals; Histologic; Histology; Image; Image Guided Biopsy; Immunohistochemistry; Magnetic Resonance Imaging; Malignant Neoplasms; Maps; Mathematics; Mission; Modeling; Molecular; Molecular Analysis; Oncogenes; Oncology; Operative Surgical Procedures; Paraffin Embedding; Pathology; Patients; Phenotype; Process; RNA; Running; Sampling; Scanning; Site; Slide; Subgroup; System; Systems Analysis; Tissue Stains; Tissue imaging; Tissues; Training; Validation; data integration; gene panel; imaging facilities; in vivo; machine learning model; mathematical model; radiological imaging; recruit; single cell sequencing; single-cell RNA sequencing; tissue preparation; tool; transcriptome sequencing; treatment response

SUMMARY: BIOSPECIMEN CORE The major objective of the Biospecimen Core is to obtain, process, image, and analyze glioblastoma (GBM) patients’ biopsies for use in both Projects of our Mayo/Columbia CSBC Mathematical Oncology Systems Analysis Imaging Center (MOSAIC). Patient biopsies are central to our CSBC’s primary goal: building a conceptual framework to understand sensitive response to therapy through the represented tissue states in clinical and experimental settings. The duties of the Biospecimen Core are spread across both sites: Mayo Clinic Arizona (MCA) and Columbia University Medical Center (CUMC). The Biospecimen Core will assist the Center by operating under two specific aims. In Aim 1, we collect, process, and analyze image-guided biopsies from pre-and post-treatment GBM. For Aim 2, we perform histopathological, immunohistochemical (multiplex-IHC), and molecular analyses (bulk RNA-seq, scRNA-seq) of image-guided biopsies. The Biospecimen Core will provide support for both projects. Project 1: Targeting Glioma Tissue States will utilize the RNAseq and single cell sequencing data from the biopsies collected and analyzed by the Biospecimen Core to assess the compositional landscape of glioblastoma along with the cross-talk between different subgroups that influence phenotype. Project 2: Imaging the Dynamic Tissue State in Patients In Vivo will utilize the bulk histology and RNAseq along with the imaging of the image-localized biopsies collected from the Biospecimen Core. Project 2 will also incorporate these histologic and molecular cell lineage data into ML and mechanistic models that map the relationship of magnetic resonance imaging (MRI) features to cellular composition. These data will drive the training and validation of machine learning models and the parameterization of mechanistic mathematical models. The data generated by the Biospecimen Core will be transferred to the Data Integration and Computation Core, where it will be stored, further processed including batch correction and atlas alignment, and integrated into computational modeling tools.

摘要：Biospecimen Core 生物测量核心的主要目的是获得，处理，图像和分析胶质母细胞瘤（GBM） 患者的活检用于我们的Mayo/Columbia CSBC数学肿瘤系统的两个项目 分析成像中心（马赛克）。患者活检是我们CSBC的主要目标的核心：建立一个 通过代表的组织状态了解对治疗的敏感反应的概念框架 临床和实验环境。生物测量核心的职责分布在两个站点：蛋黄酱 亚利桑那州诊所（MCA）和哥伦比亚大学医学中心（CUMC）。 Biospececimen Core将通过以两个特定目标运行来帮助该中心。在AIM 1中，我们收集，处理， 并分析治疗前和治疗后GBM的图像引导活检。对于AIM 2，我们执行组织病理学， 图像引导的免疫组织化学（多重IHC）和分子分析（Bulk RNA-Seq，Scrna-Seq） 活检。 Biospec -ectemen Core将为这两个项目提供支持。 项目1：靶向神经胶质瘤组织状态将利用RNASEQ和单细胞测序数据 通过生物测量核心收集和分析的活检，以评估 胶质母细胞瘤以及影响表型的不同亚组之间的串扰。 项目2：成像体内患者的动态组织状态将利用大量组织学和RNASEQ 以及从生物晶体核心收集的图像定位活检的成像。项目2将 还将这些组织学和分子细胞谱系数据纳入ML以及绘制的机械模型 磁共振成像（MRI）特征与细胞组成的关系。这些数据将驱动 机器学习模型的培训和验证以及机械数学的参数化 型号。 生物测量核心产生的数据将转移到数据集成和计算中 核心，将其存储的位置，进一步处理，包括批处理和地图集对齐，并集成 进入计算建模工具。