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 单细胞转录组学已转化了脑细胞类型分类的领域，允许同时 测量足够的分子特征从足够的细胞进行定量分类，并以高度分类 跨大脑区域和物种的保护。此外，由其基因分类的细胞在很大程度上具有 连贯的形状，电气性能，空间位置和项目目标，带来了多模式的梦想 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 不同的信息以学习任何给定的东西。为了解决这些挑战，艾伦学院已经开发了 一系列高质量参考数据集，一种用于组织和共享其相关单元的标准格式 类型分类，以及用于探索这些单元格类型的许多Web工具。细胞类型知识资源管理器 （CTKE）于2021年12月发布，旨在探索转录组学，电生理学， 小鼠主要运动皮层中单个细胞类型的形态，空间定位和表观遗传学， 摩尔果和人类。 Allen Brain Cell（ABC）地图集将于2022年下半年发布，将使用户能够 探索整个小鼠大脑的细胞类型分类学和空间图，显着增加了广度 CTKE覆盖的细胞类型，同时继续启用用户友好的数据探索。两个资源 当前的细胞类型分类学的方式是神经科学领域所特有的。 这些数据，标准和Web工具继续是一种开放的科学实践，这些实践一直是基石 艾伦学院（Allen Institute）自二十年前的艾伦小鼠大脑图书馆发行以来。启用用户 不仅要找到，而且要成功地使用这些工具，艾伦学院还拥有既定的培训， 教育和外展计划，以支持其在各个职业和学习阶段的资源用户。细胞 尤其是类型和分类科学资源，依赖于神经生物学，遗传学，应用的技能 数学和计算机科学，对学生和专业人士提出挑战，并扩展这一点 支持此类工具的计划对于神经科学社区特别有价值。 科学和公众对细胞类型分类法（SPOCTT）计划的目标是 使这些公共资源更广泛地通向一般和科学社区， 通过合并，协作，培训，教育和外展工作的结合。经过 为分类学的潜在使用者提供可扩展的培训资源和个性化的支持和个性化的支持 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1年级的CTKE和 2年级的ABC地图集），（2）设置大脑倡议细胞普查网络（BICCN）和艾伦学院分类法 作为研究健康和疾病大脑的科学标准，（3）扩大了艾伦的范围 建立一个年轻，更多样化的神经科学社区。