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稳态的重要器官介导食物摄入后的营养吸收。虽然这两个器官都广泛长度，不同部分内的功能和细胞异质性存在已知差异每一个。此外，肠道任何地方的横截面都显示出复杂的成分分层参与吸收和分泌、肠道内容物的运动、循环和免疫。在这个提交后，我们建议斯坦福组织图谱中心（TMC）继续努力生成小肠和结肠的多模式、三维单细胞分辨率图墙结构。这将作为进一步研究肠道功能和疾病。我们将从已故器官捐献者那里收集组织并明确同意分发 HuBMAP 联盟和广泛访问基因组数据共享 (GDS) 的成员。三套然后将采用技术。组织样本将接受单核 ATAC-seq 和RNA测序。这些开放的染色质和转录组图谱将在空间上映射到组织使用 CODEX（CO-Detection by indEXing）多重空间免疫分析进行切片。我们将还采用分子制图多重荧光原位杂交 (FISH) 分析，以便更准确地整合 CODEX 和单核数据。由此产生的三—— 维度图将跨越肠壁的所有层，包括上皮、肠内分泌、血管、淋巴、神经、免疫和肌肉细胞群，有助于正常肠道功能。