https://github.com/immunogenomics/amp_phase1_ra_viewer

🌻 View single-cell RNA-seq and mass cytometry data in synovial tissues from patients with RA or OA.
https://github.com/immunogenomics/amp_phase1_ra_viewer

cytof-data data-science data-visualization r rna-seq-data shiny-apps single-cell-rna-seq

Last synced: 4 months ago
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🌻 View single-cell RNA-seq and mass cytometry data in synovial tissues from patients with RA or OA.

• Host: GitHub
• URL: https://github.com/immunogenomics/amp_phase1_ra_viewer
• Owner: immunogenomics
• License: gpl-3.0
• Created: 2018-01-26T12:42:24.000Z (over 7 years ago)
• Default Branch: master
• Last Pushed: 2019-06-18T01:45:17.000Z (over 6 years ago)
• Last Synced: 2025-06-05T21:09:47.333Z (5 months ago)
• Topics: cytof-data, data-science, data-visualization, r, rna-seq-data, shiny-apps, single-cell-rna-seq
• Language: R
• Homepage: https://immunogenomics.io/ampra
• Size: 1.19 MB
• Stars: 4
• Watchers: 6
• Forks: 2
• Open Issues: 5
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

Awesome Lists containing this project

README

          
# amp_phase1_ra_viewer 

An app for viewing single-cell RNA-seq and mass cytometry data in synovial tissues from RA and OA patients.

## :rocket: Explore the data



  https://immunogenomics.io/ampra

  



## :mortar_board: Read the paper

**Defining Inflammatory Cell States in Rheumatoid Arthritis Joint Synovial Tissues by Integrating Single-cell Transcriptomics and Mass Cytometry**

Fan Zhang, Kevin Wei, Kamil Slowikowski, Chamith Y. Fonseka, Deepak A. Rao, Stephen Kelly, Susan M. Goodman, Darren Tabechian, Laura B. Hughes, Karen Salomon-Escoto, Gerald F. M. Watts, William Apruzzese, David J. Lieb, David L. Boyle, Arthur M. Mandelin II, Accelerating Medicines Partnership: RA Phase 1, AMP RA/SLE, Brendan F. Boyce, Edward DiCarlo, Ellen M. Gravallese, Peter K. Gregersen, Larry Moreland, Gary S. Firestein, Nir Hacohen, Chad Nusbaum, James A. Lederer, Harris Perlman, Costantino Pitzalis, Andrew Filer, V. Michael Holers, Vivian P. Bykerk, Laura T. Donlin, Jennifer H. Anolik, Michael B. Brenner, Soumya Raychaudhuri

*Nature Immunology* 2019. https://doi.org/10.1038/s41590-019-0378-1

## :floppy_disk: Get the data

Download the data from ImmPort:



SDY998:

AMP Rheumatoid Arthritis Phase 1



## :octocat: Get the code

Get the code for the analysis in the paper:

- https://github.com/immunogenomics/amp_phase1_ra

Get the code for the data viewer:

- https://github.com/immunogenomics/amp_phase1_ra_viewer