Penn Center for Multi-scale Molecular Mapping of the Female Reproductive System

宾夕法尼亚大学女性生殖系统多尺度分子图谱中心

• 批准号: 10117836
• 负责人: JUNHYONG KIM
• 金额: $ 75万
• 依托单位: UNIVERSITY OF PENNSYLVANIA
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-24 至 2024-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10117836
• 关键词: 3-Dimensional; Anatomic Models; Anatomy; Atlases; Basic Science; Benign; Biological Assay; Cell Communication; Cells; Cellular biology; Cervical; Characteristics; Chromatin; Clinical; Complex; Data; Deposition; Discipline of obstetrics; Endometrial; Ensure; Equilibrium; Experimental Designs; Fertility; Generations; Goals; Gynecologic; Gynecology; Health; Human BioMolecular Atlas Program; Human Biology; Image; Individual; Informatics; Information Systems; Location; Malignant Neoplasms; Mammalian Oviducts; Maps; Measurement; Metadata; Modeling; Molecular; Operative Surgical Procedures; Organ; Organoids; Ovary; Pennsylvania; Physiological; Procedures; Process; Prophylactic treatment; Protocols documentation; Quality Control; RNA; Radiology Specialty; Reagent; Records; Reproductive Health; Reproductive Medicine; Reproductive system; Research; Research Personnel; Research Subjects; Resources; Risk; Sampling; Site; Sterilization; Structure; System; Therapeutic; Time; Tissue Sample; Tissues; Transplantation; United States; Universities; Uterus; Women' s Health; Work; blastocyst; cell community; computational pipelines; cost; data sharing; digital; female reproductive system; human female; indexing; individual variation; member; molecular scale; multimodality; programs; single molecule; single-cell RNA sequencing; structured data; transcriptomics

The female reproductive system, the uterus, fallopian tubes and the ovaries, is a complex interrelated set of organs that is physiologically dynamic and not only important for fertility but critically interrelated with general health. Single cell studies of the human female reproductive system and related tissues have been previously studied, but, as of yet, a comprehensive program, aligned with the goals of the HuBMAP, to define a molecular map of the entire system, integrating multi-modal assays, spatial diversity, and individual variations has not been established. The Penn Department of Obstetrics and Gynecology performs approximately 3,500 surgical procedures annually, of which many procedures allow sampling of multiple organs and locations from the same subject under normal conditions. Here, we propose to leverage the sampling opportunities afforded by the Penn ObGyn group and the single cell biology expertise of Penn investigators to establish a Penn Center for Multi-scale Molecular Map of the Female Reproductive System. We will obtain a comprehensive molecular characterization of the female reproductive system using six different molecular assays for at least ~700 tissue samples in anatomically indexed samples, creating a key resource for both basic science and women’s health. The molecular assays include single cell RNAseq, clampFISH spatial transcriptomics, simultaneous single cell open chromatin and RNA assays, and spatial open chromatin assay, among others. We will also generate a 3D anatomical model to provide spatial coordinate for our molecular characterization. All assay data will be registered to our 3D anatomical map that will be integrated with the HIVE Common Coordinate Framework. All metadata from subject records, clinical procedures, molecular procedures, and informatics pipelines will be collected, curated, and deposited as structured data. All data, including an extensive set of metadata, will be made available as a public resource. The completion of this resource will impact reproductive medicine for women’s health and also inform basic biology of human cell communities.

女性生殖系统，子宫，输卵管和卵巢，是一个复杂的相互关联的集合 指生理上有活力的器官，不仅对生育能力重要，而且与 总体健康状况。对人类女性生殖系统和相关组织的单细胞研究 以前已经研究过，但到目前为止，还没有一个全面的计划，与 HuBMAP，定义整个系统的分子图谱，集成多模式分析，空间 多样性，个体差异尚未确立。宾夕法尼亚大学产科和医学部 妇科每年进行大约3500次外科手术，其中许多手术 允许在正常情况下对同一受试者的多个器官和位置进行采样。这里, 我们建议利用宾夕法尼亚大学OBGYN小组和单一 宾夕法尼亚大学研究人员建立宾夕法尼亚大学多尺度分子图谱中心的细胞生物学专业知识 女性生殖系统。我们将获得一个全面的分子表征 使用六种不同的分子分析方法对至少700个组织样本进行女性生殖系统检查 解剖索引的样本，为基础科学和妇女健康创造了一个关键资源。这个 分子检测包括单细胞RNAseq、钳制FISH空间转录、同时单细胞 细胞开放染色质和RNA分析，以及空间开放染色质分析等。我们还将 生成3D解剖模型，为我们的分子表征提供空间坐标。全 化验数据将被注册到我们的3D解剖图中，该图将与HIVE Common集成 协调框架。所有来自受试者记录，临床程序，分子程序， 信息学管道将作为结构化数据进行收集、管理和存储。所有数据，包括 一套广泛的元数据将作为公共资源提供。这项工程的完成 资源将对妇女健康的生殖医学产生影响，并为人类基础生物学提供信息 细胞群落。