Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma
The infiltration of tumor-reactive T cells in the tumor site is associated with better survival and immunotherapy response. However, tumor-reactive T cells were often represented by the infiltration of total CD8+ T cells, which was confounded by the presence of bystander T cells. To identify tumor-r...
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Frontiers Media S.A.
2021
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oai:doaj.org-article:4ff13bfdd6ff4c63903dd4cd55fc21612021-11-05T12:18:11ZSingle-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma1664-322410.3389/fimmu.2021.758288https://doaj.org/article/4ff13bfdd6ff4c63903dd4cd55fc21612021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fimmu.2021.758288/fullhttps://doaj.org/toc/1664-3224The infiltration of tumor-reactive T cells in the tumor site is associated with better survival and immunotherapy response. However, tumor-reactive T cells were often represented by the infiltration of total CD8+ T cells, which was confounded by the presence of bystander T cells. To identify tumor-reactive T cells at the cancer lesion, we performed integration analyses of three scRNA-seq data sets of T cells in melanoma. Extensive heterogeneous functional states of T cells were revealed in the tumor microenvironment. Among these states, we identified a subset of tumor-reactive T cells which specifically expressed tumor-reactive markers and T cell activation signature, and were strongly enriched for larger T cell receptor (TCR) clones. We further identified and validated a tumor-reactive T cell signature (TRS) to evaluate the tumor reactivity of T cells in tumor patients. Patients with high TRS scores have strong immune activity and high mutation burden in the TCGA-SKCM cohort. We also demonstrated a significant association of the TRS with the clinical outcomes of melanoma patients, with higher TRS scores representing better survival, which was validated in four external independent cohorts. Furthermore, the TRS scores exhibited greater performance on prognosis prediction than infiltration levels of CD8+ T cells and previously published prognosis-related signatures. Finally, we observed the capability of TRS to predict immunotherapy response in melanoma. Together, based on integrated analysis of single-cell RNA-sequencing, we developed and validated a tumor-reactive-related signature that demonstrated significant association with clinical outcomes and response to immunotherapy.Min YanJing HuYanyan PingLiwen XuGaoming LiaoZedong JiangBo PangShangqin SunYunpeng ZhangYun XiaoYun XiaoXia LiXia LiFrontiers Media S.A.articletumor reactivitytumor-infiltrating T cellsimmunotherapyexhausted T cellsmelanomaImmunologic diseases. AllergyRC581-607ENFrontiers in Immunology, Vol 12 (2021) |
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tumor reactivity tumor-infiltrating T cells immunotherapy exhausted T cells melanoma Immunologic diseases. Allergy RC581-607 |
| spellingShingle |
tumor reactivity tumor-infiltrating T cells immunotherapy exhausted T cells melanoma Immunologic diseases. Allergy RC581-607 Min Yan Jing Hu Yanyan Ping Liwen Xu Gaoming Liao Zedong Jiang Bo Pang Shangqin Sun Yunpeng Zhang Yun Xiao Yun Xiao Xia Li Xia Li Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma |
| description |
The infiltration of tumor-reactive T cells in the tumor site is associated with better survival and immunotherapy response. However, tumor-reactive T cells were often represented by the infiltration of total CD8+ T cells, which was confounded by the presence of bystander T cells. To identify tumor-reactive T cells at the cancer lesion, we performed integration analyses of three scRNA-seq data sets of T cells in melanoma. Extensive heterogeneous functional states of T cells were revealed in the tumor microenvironment. Among these states, we identified a subset of tumor-reactive T cells which specifically expressed tumor-reactive markers and T cell activation signature, and were strongly enriched for larger T cell receptor (TCR) clones. We further identified and validated a tumor-reactive T cell signature (TRS) to evaluate the tumor reactivity of T cells in tumor patients. Patients with high TRS scores have strong immune activity and high mutation burden in the TCGA-SKCM cohort. We also demonstrated a significant association of the TRS with the clinical outcomes of melanoma patients, with higher TRS scores representing better survival, which was validated in four external independent cohorts. Furthermore, the TRS scores exhibited greater performance on prognosis prediction than infiltration levels of CD8+ T cells and previously published prognosis-related signatures. Finally, we observed the capability of TRS to predict immunotherapy response in melanoma. Together, based on integrated analysis of single-cell RNA-sequencing, we developed and validated a tumor-reactive-related signature that demonstrated significant association with clinical outcomes and response to immunotherapy. |
| format |
article |
| author |
Min Yan Jing Hu Yanyan Ping Liwen Xu Gaoming Liao Zedong Jiang Bo Pang Shangqin Sun Yunpeng Zhang Yun Xiao Yun Xiao Xia Li Xia Li |
| author_facet |
Min Yan Jing Hu Yanyan Ping Liwen Xu Gaoming Liao Zedong Jiang Bo Pang Shangqin Sun Yunpeng Zhang Yun Xiao Yun Xiao Xia Li Xia Li |
| author_sort |
Min Yan |
| title |
Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma |
| title_short |
Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma |
| title_full |
Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma |
| title_fullStr |
Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma |
| title_full_unstemmed |
Single-Cell Transcriptomic Analysis Reveals a Tumor-Reactive T Cell Signature Associated With Clinical Outcome and Immunotherapy Response In Melanoma |
| title_sort |
single-cell transcriptomic analysis reveals a tumor-reactive t cell signature associated with clinical outcome and immunotherapy response in melanoma |
| publisher |
Frontiers Media S.A. |
| publishDate |
2021 |
| url |
https://doaj.org/article/4ff13bfdd6ff4c63903dd4cd55fc2161 |
| work_keys_str_mv |
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| _version_ |
1718444287955304448 |