https://github.com/immunogenomics/ttek
TteK (Granzyme K+ CD8 T cells): the core population of inflamed human tissue-associated CD8 T cells
https://github.com/immunogenomics/ttek
Last synced: 8 months ago
JSON representation
TteK (Granzyme K+ CD8 T cells): the core population of inflamed human tissue-associated CD8 T cells
- Host: GitHub
- URL: https://github.com/immunogenomics/ttek
- Owner: immunogenomics
- Created: 2022-05-07T20:24:27.000Z (about 4 years ago)
- Default Branch: main
- Last Pushed: 2022-06-24T02:59:29.000Z (almost 4 years ago)
- Last Synced: 2025-06-27T18:43:27.530Z (12 months ago)
- Language: Jupyter Notebook
- Homepage:
- Size: 5.94 MB
- Stars: 1
- Watchers: 12
- Forks: 0
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
Awesome Lists containing this project
README
# TteK (Granzyme K+ CD8 T cells): the core population of inflamed human tissue-associated CD8 T cells
## Overview
This repo provides the *Source code* for our TteK paper. The published paper can be viewed and cited:
- **Jonsson, A.H.\***, **Zhang, F.\***, Dunlap, G., Gomez-Rivas, E., Watts, G.F.M., Faust, H., Rupani, K., Rupani, K.V., Mears, J.R., Meednu, N., Wang, R., Keras, G., Coblyn J., Massarotti, E., Todd, D., Anolik, J.H., McDavid, A., AMP RA/SLE, Wei, K., Rao, D.A., **Raychaudhuri, S.\^**, **Brenner, M.B.\^**. Granzyme K+ CD8 T cells form a core population in inflamed human tissue, ***Science Translational Medicine***, 2022, Cover article!
*: co-first author
^: co-senior author
## Data availibility
The raw and processed data of this study are available at:
- [GSE202365](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202365) Bulk RNA-seq of human synovial fluid CD8 T cells sorted by Granzyme B vs Granzyme K expression
- [GSE202366](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202366) Single-cell RNA-seq of CD8 T cells sorted from one sample of seropositive rheumatoid arthritis synovial fluid
- [GSE202367](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202367) Effect of T cell supernatants or cytokines on synovial fibroblasts
- [GSE202375](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202375) Pooled single-cell RNA-seq data from T cells from human synovial tissue
## Contact
Send ajonsson@bwh.harvard.edu and fanzhang@broadinstitute.org (fan.3.zhang@cuanschutz.edu) an email if you have any questions about the data or the analyses.