Core C: CODEX Core

核心 C：CODEX 核心

• 批准号: 10704098
• 负责人: Seung K Kim
• 金额: $ 33.36万
• 依托单位: STANFORD UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2021
• 资助国家: 美国
• 起止时间: 2021-08-01 至 2026-07-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10704098
• 关键词: Antibodies; Antigens; Architecture; Biological Markers; Cell Ontogeny; Cells; Cellular Structures; Consultations; Data; Detection; Development; Disease; Early Diagnosis; Ensure; Epithelium; Frequencies; Generations; Genetic; Goals; Human; Human Resources; Image; Immune; Immune Evasion; Immune system; Individual; Laboratories; Learning; Link; Malignant neoplasm of pancreas; Maps; Methods; Monitor; Mus; Neighborhoods; Pancreas; Population; Public Health; Quality Control; Reagent; Research; Research Personnel; Resources; Retrieval; Role; Services; Signal Transduction; Stains; Stereotyping; Time; Tissue Procurements; Tissue imaging; Tissues; Work; cancer cell; cancer therapy; candidate identification; cell type; cost; effective therapy; health goals; human tissue; immunoregulation; in vivo; indexing; mouse model; pancreas imaging; programs; single-cell RNA sequencing; spatial relationship; stem cells; tissue preparation; tool; treatment response; tumor; tumor growth; ultrasound

ABSTRACT (Core C) A central focus of our program is understanding the roles of specific cell types, including immune cell populations, throughout the initiation, development and spread of PDAC in mouse models and in humans. A key aspect of this effort is to define the frequency, spatial relationships and activation states of cell types within tumors, and to learn how these parameters change over time and in response to therapy. Additionally, while each project focuses on a different aspect of PDAC, a comprehensive understanding of the role of the epithelial compartment and the immune system in PDAC will require simultaneous analysis of each of these cell types in multiple tissues. To achieve these goals, we will use CO-Detection by indEXing (CODEX), a new method generated by Dr. Nolan’s group at Stanford. CODEX will allow cytometric imaging of tissue sections with dozens of antibodies. CODEX data from this Core can then be linked to complementary data from CyTOF and scRNASeq used in individual projects. The Specific Aims of Core C for human and mouse pancreas studies are: 1. Provide CODEX processing to investigators, including staining, imaging and quality control 2. Provide CODEX analysis, including antigen clustering, cell type annotation and neighborhood mapping 3. Develop new antibodies and reagents for CODEX in consultation with P01 investigators 4. Develop standard workflows for tissue procurement, processing, storage and retrieval in partnership with the human pancreas tissue core (Core B). Projects 1, 2 and 3 will specifically use the CODEX core platform for studies of both mouse and human tissues. Core C will work closely with the Human Tissue Core B to ensure appropriate human tissue preparation to support CODEX analysis. Thus, Core C will provide services technically difficult and not available in most laboratories, materials not available commercially or impossible to obtain elsewhere, and services more reliably and cost-effectively performed than if performed in an individual investigator’s laboratory. This CODEX Core would be new, and unique at Stanford.

摘要（核心 C） 我们计划的中心重点是了解特定细胞类型的作用，包括免疫细胞 群体，贯穿 PDAC 在小鼠模型和人类中的启动、发展和传播。 这项工作的关键方面是定义细胞类型的频率、空间关系和激活状态 肿瘤，并了解这些参数如何随时间变化以及对治疗的反应。 每个项目侧重于 PDAC 的不同方面，全面了解上皮细胞的作用 PDAC 中的隔室和免疫系统将需要同时分析其中的每种细胞类型 为了实现这些目标，我们将使用一种新方法 CO-Detection by indEXing (CODEX)。 由诺兰博士在斯坦福大学的 CODEX 团队开发的系统将允许对数十个组织切片进行细胞计数成像。 然后，可以将来自该 Core 的 CODEX 数据与各个项目中使用的 CyTOF 和 scRNA Seq 的补充数据关联起来。 Core C 用于人类和小鼠胰腺研究的具体目标是： 1. 为研究人员提供 CODEX 处理，包括染色、成像和质量控制 2. 提供CODEX分析，包括抗原聚类、细胞类型注释和邻域映射 3. 与 P01 研究人员协商，为 CODEX 开发新的抗体和试剂 4. 合作开发组织采购、处理、储存和检索的标准工作流程 与人类胰腺组织核心（核心 B）。 项目 1、2 和 3 将专门使用 CODEX 核心平台来研究小鼠和人体组织。 核心 C 将与人体组织核心 B 密切合作，以确保适当的人体组织准备 支持 CODEX 分析，因此，Core C 将提供技术上困难且在大多数情况下不可用的服务。 实验室、商业上无法获得或无法在其他地方获得的材料以及更可靠的服务 与在单个研究者的实验室中执行相比，执行成本效益更高。 在斯坦福大学将是新颖且独特的。