Stanford Tissue Mapping Center

斯坦福大学组织绘图中心

基本信息

批准号：
10531081
负责人：
GARRY P NOLAN
金额：
$ 200万
依托单位：
STANFORD UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2022
资助国家：
美国
起止时间：
2022-09-23 至 2026-06-30
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10531081
关键词：
3-Dimensional ATAC-seq Antibodies Architecture Area Biological Assay Biological Sciences Blood Circulation Blood Vessels Cell Nucleus Cells Chromatin Collaborations Collection Colon Communities Complex Consent Data Data Set Deposition Detection Disease Educational workshop Epithelial Ethnic Origin Exposure to Fluorescent in Situ Hybridization Food Gene Expression Gene Expression Regulation Generations Genes Genome Genomics Heterogeneity Homeostasis Human Human BioMolecular Atlas Program Human body Image Imaging Techniques Immune Immunity Immunoassay Individual Ingestion Intestines Length Lymphatic Maps Mediating Metabolism Molecular Mucous Membrane Muscle Neighborhoods Neurophysiology - biologic function North Dakota Nucleic Acid Regulatory Sequences Nutritional Organ Organ Donor Organ Transplantation Phase Physiology Play Population Postdoctoral Fellow Preservation Technique Process Production Protocols documentation Regulator Genes Resolution Resources Role Running Sampling Science Signal Transduction Site Slide Small Intestines Small Nuclear RNA South Dakota Structure Technology Thick Tissue Banks Tissue Preservation Tissue Sample Tissue-Specific Gene Expression Tissues Training Tribes Underserved Population Work XCL1 gene absorption analysis pipeline cell motility cell type cost data sharing data submission genome wide association study graduate student indexing insight multimodal data multimodality multiparametric imaging public repository sex single cell technology tissue mapping transcriptome transcriptome sequencing transcriptomics

项目摘要

PROJECT SUMMARY ABSTRACT: Overall The small bowel and colon are organs critical for maintaining homeostasis of the human body by mediating nutritional absorption upon the ingestion of food. Though both organs are extensive in length, there are known differences in function and cellular heterogeneity within different portions of each. Also, a cross section anywhere in the bowel reveals a complex layering of components involved in absorption and secretion, motility of gut contents, circulation, and immunity. In this submission, we propose to continue our efforts in the Stanford Tissue Mapping Center (TMC) to produce multi-modal, three-dimensional single-cell resolution maps of the small bowel and colonic wall structure. This will serve as a community resource to further study intestinal function and disease. We will collect tissues from deceased organ donors with explicit consent for distribution among the HuBMAP consortium and broad access genome data sharing (GDS). Three sets of technologies will then be employed. Tissue samples will be subjected to single-nuclei ATAC-seq and RNA-seq. These open chromatin and transcriptomic profiles will be spatially mapped to tissue sections using the CODEX (CO-Detection by indEXing) multiplexed spatial immunoassay. We will also employ the Molecular Cartography multiplexed fluorescence in situ hybridization (FISH) assay to enable more accurate integration of CODEX and single-nuclei data. The resultant three- dimensional maps will span all layers of the bowel wall and include the epithelial, enteroendocrine, vascular, lymphatic, nervous, immune, and muscular cell populations that contribute to normal bowel function.

项目摘要摘要：总体小肠和结肠是维持人体体内平衡至关重要的器官摄入食物后介导营养吸收。尽管这两个器官都广泛长度，在不同部分的功能和细胞异质性上存在已知差异每个。此外，肠中的任何地方都有一个横截面揭示了复杂的组件分层参与吸收和分泌，肠道含量的运动，循环和免疫力。在这个提交，我们建议继续在斯坦福组织映射中心（TMC）继续我们的努力产生小肠和结肠的多模式的三维单细胞分辨率图墙壁结构。这将作为社区资源，以进一步研究肠道功能和疾病。我们将在明确同意下从已故器官捐赠者那里收集组织在Hubmap联盟和广泛的访问基因组数据共享（GDS）中。三组然后将采用技术。组织样品将受到单核ATAC-SEQ的约束和RNA-seq。这些开放的染色质和转录组轮廓将在空间上映射到组织使用法典（通过索引进行共同检测）多路复用空间免疫测定的部分。我们将还采用分子制图多路复用荧光原位杂交（FISH）分析以更准确地集成法典和单核数据。由此产生的三尺寸地图将跨越肠壁的所有层，包括上皮肠肠分泌物，血管，淋巴，神经，免疫和肌肉细胞群，导致正常排便功能。