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The Cell Type Taxonomies A-Z: Webinar Series features presentations by Allen Institute scientists & staff for a full guide to brain cell types and taxonomies, and how and why to use these resources in your research.
Please register for any of the webinars you are interested in attending!
Virtual
Audience
Graduate, Postdocs, Scientists, Undergraduate
How many brain cell types are there? What is their form, function, and how do they connect? Teams at the Allen Institute for Brain Science are working to answer these foundational neuroscience questions. By cataloguing and genetically profiling cell types of the brain with incredible precision and detail, we are working to improve our fundamental understanding of brain development, evolution, and disease. Join us for a webinar series to learn all about the ins and outs of the Allen Institute’s open data and cell type taxonomy tools.
For questions or assistance, please contact education@alleninstitute.org
Description
This webinar will focus on how the Allen Institute uses team science to tackle large-scale projects. We will focus on the teams involved in our spatial transcriptomics pipeline and the journey that cells take, all the way from our histology lab to being featured online in tools such as the ABC Atlas.
Recording of this webinar
Time
9-10am PST
This webinar will feature an introduction to our previous data challenge MapMySpikes, where participants were challenged to map cell types onto Allen Institute transcriptomic taxonomies using electrophysiological data, and a talk given by our data challenge winner featuring their winning tool.
9:30-10:30am PST
This webinar will focus on the Annotation Comparison Explorer (ACE), a new tool for comparing annotations across Allen Institute transcriptomic taxonomies. This tool can also be used to compare annotations across transcriptomic cell types from Alzheimer’s Disease studies as well.
Register for this webinar or others
This webinar will be an introduction to single cell transcriptomics, how this technique is used at the Allen Institute, and how “single cell” transcriptomics compares to “single nucleus”.
This webinar will focus on The Seattle Alzheimer’s Disease Brain Cell Atlas (SEA-AD), featuring some of the scientists behind the project. The goal of the SEA-AD Atlas is to characterize the cellular and molecular changes that occur during the progression of Alzheimer’s disease, using single nucleus– and spatial transcriptomics and other techniques.
This webinar will focus on using Allen Institute Jupyter notebooks to access datasets featured in the ABC Atlas, such as the whole mouse brain single cell transcriptomics dataset.
Check back for details
Previous Webinars
Cell Types 101
This webinar will feature an introduction to the study of cell types! We will cover evolving cell type definitions, cell types across species, the types of data used to define cell types, and the importance of having standard definitions for cell types. This will be a great starting point for those who are new to cell types, and refresher for the experts.
Recording of this webinar is available on our YouTube channel here.
What is a taxonomy?
This webinar will focus on the systematic classification of cell types and their hierarchical relationships. Much like species taxonomy (family, genus, species, etc.), researchers at the Allen Institute and their collaborators are working to create a standard taxonomy for cell types.
Recording of this webinar is available on our YouTube channel here
PatchSeq: The techniques behind the Cell Type Knowledge Explorer
This webinar will focus on the Cell Type Knowledge Explorer, a cell type taxonomy tool created by the Allen Institute and their collaborators. Here we will learn how transcriptomic, morphological, and electrophysiological data is generated and used to define cell types in the CTKE.
Cross-species cell types
This webinar will also focus on the Cell Type Knowledge Explorer, a cell type taxonomy tool created by the Allen Institute and their collaborators. Here we will learn how multimodal data is used in the CTKE to determine cell type homologies across species (mouse, human, and marmoset) in the primary motor cortex.
What is your cell type: MapMyCells
This webinar will focus on MapMyCells, a new interactive cell type taxonomy tool. MapMyCells allows for users to upload their own cell type data and compare it to taxonomy datasets generated by the Allen Institute and their collaborators.
Introduction to ABC Atlas
This webinar will focus on the Allen Brain Cell (ABC) Atlas, a platform for visualizing single cell transcriptomic data in the brain. Currently, the atlas features spatial, non-spatial, human, and mouse data; this webinar will be an introduction to and a general overview of the atlas.
~~~ This webinar series was supported by the National Institute of Neurological Disorders and Stroke of the National Institutes of Health under Award Number U24NS133077. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.
12.19.2024
12.17.2024
03.17.2025 - 03.19.2025
06.16.2025 - 06.18.2025
07.14.2025 - 07.17.2025
