https://github.com/ismms-himc/legendscreen_cytof
https://github.com/ismms-himc/legendscreen_cytof
Last synced: 2 months ago
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- Host: GitHub
- URL: https://github.com/ismms-himc/legendscreen_cytof
- Owner: ismms-himc
- Created: 2020-03-23T20:18:09.000Z (about 5 years ago)
- Default Branch: master
- Last Pushed: 2020-04-21T01:00:30.000Z (about 5 years ago)
- Last Synced: 2025-03-05T08:43:06.453Z (3 months ago)
- Language: Jupyter Notebook
- Size: 498 KB
- Stars: 0
- Watchers: 2
- Forks: 1
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
# LEGENDScreen Antibody Staining Dataset
The LEGENDScreen Antibody Staining Dataset is a comprehensive dataset performed by the Human Immune Monitoring Center at Mt. Sinai that profiles the marker expression of 300+ antibodies on all major immune subsets in circulating blood at a single-cell resolution generated using Biolegend's LEGENDScreen kit (https://www.biolegend.com/en-us/legendscreen) and a comprehensive mass cytometry pipeline.
The below NBViewer link contains interactive heatmaps generated from the LEGENDScreen Antibody Staining Dataset with both raw and z-score normalized visualizations.
https://nbviewer.jupyter.org/github/ismms-himc/LegendScreen_CyTOF/blob/master/notebooks/Legend_Screen.ipynb
For more information on the dataset please refer to the publication:
Development of a Comprehensive Antibody Staining Database Using a Standardized Analytics Pipeline
El-ad David Amir, Brian Lee, Paul Badoua Martin Gordon, Xinzheng V. Guo, Miriam Merad, and Adeeb H. Rahman (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6579881/)
## Observable Notebook
https://observablehq.com/@ismms-himc/legend-screen-cytof
## Clustergrammer
Clustergrammer is a web-based tool for visualizing and analyzing high-dimensional data as interactive and shareable hierarchically clustered heatmaps and was used in the NBViewer link to visualize the LEGENDScreen Antibody Staining Dataset.
For more information please refer to the documentation: https://clustergrammer.readthedocs.io/