Scientific and Public Outreach of Cell Type Taxonomies (SPOCTT) Initiative

细胞类型分类学的科学和公众推广 (SPOCTT) 计划

• 批准号: 10724950
• 负责人: Kaitlyn Casimo
• 金额: $ 110.77万
• 依托单位: ALLEN INSTITUTE
• 依托单位国家: 美国
• 财政年份: 2023
• 资助国家: 美国
• 起止时间: 2023-08-15 至 2025-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10724950
• 关键词: Acceleration; Address; Aging; Applied Research; Area; Atlases; Automobile Driving; BRAIN initiative; Brain; Brain Diseases; Callithrix; Catalogs; Categories; Cells; Censuses; Classification; Code; Collaborations; Communities; Consensus; Data; Data Set; Development; Disease; Disparate; Documentation; Dreams; Education; Educational Curriculum; Educational process of instructing; Electrophysiology (science); Ensure; Epigenetic Process; Event; Funding; Future; General Population; Generations; Genes; Genetic; Goals; Health; Human; Individual; Industry Standard; Institution; Internet; Knowledge; Language; Learning; Location; Mammalian Cell; Maps; Measurement; Minority; Minority-Serving Institution; Modality; Molecular; Morphology; Motor Cortex; Mus; Nature; Neurobiology; Neurons; Neurosciences; Nomenclature; Persons; Publications; Publishing; Research; Research Personnel; Resource Sharing; Resources; Science; Scientific Advances and Accomplishments; Series; Shapes; Standardization; Structure; Students; Taxonomy; Testing; Time; Training; Work; Writing; base; brain cell; career; cell type; college; community college; computer science; data exploration; data integration; design; electrical property; experience; high school; improved; mathematical sciences; multimodality; nonhuman primate; online resource; open data; outreach; outreach program; programs; prospective; real world application; skills; tool; transcriptomics; user-friendly; virtual; web app; web-based tool; webinar

Project Summary Single cell transcriptomics has transformed the field of brain cell type classification, allowing simultaneous measurement of enough molecular features from enough cells to categorize neurons quantitively and with high conservation across brain areas and species. Furthermore, cells classified by their genes have largely coherent shapes, electrical properties, spatial locations, and projects targets, bringing the dream of multimodal cell type definitions ever closer to reality, but also introducing major challenges of sifting through all this disparate information to learn any given thing. To address these challenges the Allen Institute has developed a series of high-quality reference data sets, a standard format for organizing and sharing their associated cell type classifications, and a host of web tools for exploring these cell types. The Cell Type Knowledge Explorer (CTKE), released in December 2021, is designed for exploration of transcriptomics, electrophysiology, morphology, spatial localization, and epigenetics of individual cell types in the primary motor cortex of mouse, marmoset, and human. The Allen Brain Cell (ABC) Atlas, to be initially released in late 2022, will enable users to explore a cell type taxonomy and spatial map of the whole mouse brain, dramatically increasing the breadth of cell types covered by the CTKE, while continuing to enable user-friendly data exploration. Both resources present cell type taxonomies in a manner unique to the field of neuroscience. These data, standards, and web tools continue the open science practices that have been a keystone of the Allen Institute since the release of the Allen Mouse Brain Atlas almost two decades ago. To enable users not just to find, but also to successfully utilize these tools, the Allen Institute has an established Training, Education, and Outreach program to support users of its resources at various career and learning stages. Cell type and taxonomy scientific resources, in particular, rely on skills spanning neurobiology, genetics, applied math, and computer science, posing challenges for both students and professionals, and extending this program to support such tools would be particularly valuable to the neuroscience community. The goal of the Scientific and Public Outreach of Cell Type Taxonomies (SPOCTT) initiative is to make these public resources more widely accessible to the general and scientific communities, through a combination of consolidation, collaboration, training, education, and outreach efforts. By offering both scalable training resources and personalized support to prospective users of taxonomies and tools, we will (1) promote use of cell type taxonomies and associated tools (specifically the CTKE in year 1 and the ABC Atlas in year 2), (2) set BRAIN Initiative Cell Census Network (BICCN) and Allen Institute taxonomies as scientific standards for studying the brain in health and disease, and (3) broaden the reach of the Allen Institute to a younger and more diverse neuroscience community.

项目摘要 单细胞转录组学已经改变了脑细胞类型分类领域，允许同时 从足够的细胞中测量足够的分子特征，以定量地对神经元进行分类， 保护大脑区域和物种。此外，按基因分类的细胞在很大程度上 连贯的形状，电气性能，空间位置和项目目标，带来多模态的梦想 细胞类型的定义越来越接近现实，但也引入了筛选所有这些的主要挑战， 不同的信息来学习任何给定的东西。为了应对这些挑战，艾伦研究所开发了一个 一系列高质量的参考数据集，是组织和共享相关单元格的标准格式 类型分类，以及用于探索这些细胞类型的大量网络工具。细胞类型知识浏览器 （CTKE），于2021年12月发布，旨在探索转录组学，电生理学， 小鼠初级运动皮层中单个细胞类型的形态学、空间定位和表观遗传学， 绒猴和人类。艾伦脑细胞（ABC）图谱将于2022年底首次发布， 探索整个小鼠大脑的细胞类型分类和空间图， CTKE涵盖的细胞类型，同时继续支持用户友好的数据探索。这两种资源 以神经科学领域特有的方式呈现细胞类型分类。 这些数据、标准和网络工具延续了开放科学实践的基石 自从艾伦研究所的艾伦老鼠大脑图谱发布以来，大约二十年前。以使用户 不仅要找到，而且要成功地利用这些工具，艾伦研究所有一个既定的培训， 教育和推广计划，以支持其资源的用户在各个职业和学习阶段。细胞 类型和分类学科学资源，特别是依赖于跨越神经生物学，遗传学，应用 数学和计算机科学，对学生和专业人士都构成了挑战， 支持这些工具的计划对神经科学界特别有价值。 细胞类型分类学的科学和公众推广（SPOCTT）倡议的目标是 使公众和科学界更广泛地获得这些公共资源， 通过整合、合作、培训、教育和推广工作的结合。通过 为分类法的潜在用户提供可扩展的培训资源和个性化支持， 工具，我们将（1）促进使用细胞类型分类法和相关工具（特别是第1年的CTKE和 第2年ABC地图集），（2）设置BRAIN Initiative Cell Census Network（BICCN）和艾伦研究所分类法 作为研究大脑健康和疾病的科学标准，以及（3）扩大艾伦的范围 一个更年轻、更多样化的神经科学社区。