{"id":28436034,"url":"https://github.com/immunogenomics/ttek","last_synced_at":"2025-10-14T13:09:36.891Z","repository":{"id":100624141,"uuid":"489774511","full_name":"immunogenomics/TteK","owner":"immunogenomics","description":"TteK (Granzyme K+ CD8 T cells): the core population of inflamed human tissue-associated CD8 T cells","archived":false,"fork":false,"pushed_at":"2022-06-24T02:59:29.000Z","size":6224,"stargazers_count":1,"open_issues_count":0,"forks_count":0,"subscribers_count":12,"default_branch":"main","last_synced_at":"2025-06-27T18:43:27.530Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","language":"Jupyter Notebook","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/immunogenomics.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2022-05-07T20:24:27.000Z","updated_at":"2023-08-30T17:22:56.000Z","dependencies_parsed_at":"2023-05-16T10:31:27.324Z","dependency_job_id":null,"html_url":"https://github.com/immunogenomics/TteK","commit_stats":null,"previous_names":[],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/immunogenomics/TteK","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/immunogenomics%2FTteK","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/immunogenomics%2FTteK/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/immunogenomics%2FTteK/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/immunogenomics%2FTteK/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/immunogenomics","download_url":"https://codeload.github.com/immunogenomics/TteK/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/immunogenomics%2FTteK/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":279018701,"owners_count":26086604,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-10-14T02:00:06.444Z","response_time":60,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2025-06-05T21:09:55.699Z","updated_at":"2025-10-14T13:09:36.886Z","avatar_url":"https://github.com/immunogenomics.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# TteK (Granzyme K+ CD8 T cells): the core population of inflamed human tissue-associated CD8 T cells \n\n\n## Overview\nThis repo provides the *Source code* for our TteK paper. The published paper can be viewed and cited:\n\n- **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!\n\n\n*: co-first author\n\n^: co-senior author\n\n## Data availibility\n  The raw and processed data of this study are available at: \n  \n- [GSE202365](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202365)\tBulk RNA-seq of human synovial fluid CD8 T cells sorted by Granzyme B vs Granzyme K expression\n- [GSE202366](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202366)\tSingle-cell RNA-seq of CD8 T cells sorted from one sample of seropositive rheumatoid arthritis synovial fluid\n- [GSE202367](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202367)\tEffect of T cell supernatants or cytokines on synovial fibroblasts\n- [GSE202375](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE202375)\tPooled single-cell RNA-seq data from T cells from human synovial tissue\n\n\n## Contact\nSend 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.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fimmunogenomics%2Fttek","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fimmunogenomics%2Fttek","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fimmunogenomics%2Fttek/lists"}