Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapy
The identification of patient-derived, tumor-reactive T cell receptors (TCRs) as a basis for personalized transgenic T cell therapies remains a time- and cost-intensive endeavor. Current approaches to identify tumor-reactive TCRs analyze tumor mutations to predict T cell activating (neo)antigens and...
Gespeichert in:
| Hauptverfasser: | , , , , , , , , , , , , , , , , |
|---|---|
| Dokumenttyp: | Article (Journal) |
| Sprache: | Englisch |
| Veröffentlicht: |
2025
|
| In: |
Nature biotechnology
Year: 2025, Jahrgang: 43, Heft: 1, Pages: 134-142 |
| ISSN: | 1546-1696 |
| DOI: | 10.1038/s41587-024-02161-y |
| Online-Zugang: | Verlag, kostenfrei, Volltext: https://doi.org/10.1038/s41587-024-02161-y Verlag, kostenfrei, Volltext: https://www.nature.com/articles/s41587-024-02161-y 
|
| Verfasserangaben: | C.L. Tan, K. Lindner, T. Boschert, Z. Meng, A. Rodriguez Ehrenfried, A. De Roia, G. Haltenhof, A. Faenza, F. Imperatore, L. Bunse, J.M. Lindner, R.P. Harbottle, M. Ratliff, R. Offringa, I. Poschke, M. Platten & E.W. Green |
MARC
| LEADER | 00000caa a2200000 c 4500 | ||
|---|---|---|---|
| 001 | 1897194315 | ||
| 003 | DE-627 | ||
| 005 | 20250814154407.0 | ||
| 007 | cr uuu---uuuuu | ||
| 008 | 240731s2025 xx |||||o 00| ||eng c | ||
| 024 | 7 | |a 10.1038/s41587-024-02161-y |2 doi | |
| 035 | |a (DE-627)1897194315 | ||
| 035 | |a (DE-599)KXP1897194315 | ||
| 035 | |a (OCoLC)1475305349 | ||
| 040 | |a DE-627 |b ger |c DE-627 |e rda | ||
| 041 | |a eng | ||
| 084 | |a 33 |2 sdnb | ||
| 100 | 1 | |a Tan, Chin Leng |e VerfasserIn |0 (DE-588)125452441X |0 (DE-627)1797000837 |4 aut | |
| 245 | 1 | 0 | |a Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapy |c C.L. Tan, K. Lindner, T. Boschert, Z. Meng, A. Rodriguez Ehrenfried, A. De Roia, G. Haltenhof, A. Faenza, F. Imperatore, L. Bunse, J.M. Lindner, R.P. Harbottle, M. Ratliff, R. Offringa, I. Poschke, M. Platten & E.W. Green |
| 264 | 1 | |c 2025 | |
| 300 | |b lllustrationen | ||
| 300 | |a 9 | ||
| 336 | |a Text |b txt |2 rdacontent | ||
| 337 | |a Computermedien |b c |2 rdamedia | ||
| 338 | |a Online-Ressource |b cr |2 rdacarrier | ||
| 500 | |a Online veröffentlicht: 7 März 2024 | ||
| 500 | |a Gesehen am 31.07.2024 | ||
| 520 | |a The identification of patient-derived, tumor-reactive T cell receptors (TCRs) as a basis for personalized transgenic T cell therapies remains a time- and cost-intensive endeavor. Current approaches to identify tumor-reactive TCRs analyze tumor mutations to predict T cell activating (neo)antigens and use these to either enrich tumor infiltrating lymphocyte (TIL) cultures or validate individual TCRs for transgenic autologous therapies. Here we combined high-throughput TCR cloning and reactivity validation to train predicTCR, a machine learning classifier that identifies individual tumor-reactive TILs in an antigen-agnostic manner based on single-TIL RNA sequencing. PredicTCR identifies tumor-reactive TCRs in TILs from diverse cancers better than previous gene set enrichment-based approaches, increasing specificity and sensitivity (geometric mean) from 0.38 to 0.74. By predicting tumor-reactive TCRs in a matter of days, TCR clonotypes can be prioritized to accelerate the manufacture of personalized T cell therapies. | ||
| 650 | 4 | |a Tumour immunology | |
| 700 | 1 | |a Lindner, K. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Boschert, T. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Meng, Zibo |d 1992- |e VerfasserIn |0 (DE-588)1215229836 |0 (DE-627)1726255417 |4 aut | |
| 700 | 1 | |a Rodríguez Ehrenfried, Aaron |d 1990- |e VerfasserIn |0 (DE-588)133747469X |0 (DE-627)1897195419 |4 aut | |
| 700 | 1 | |a De Roia, Alice |d 1991- |e VerfasserIn |0 (DE-588)127827183X |0 (DE-627)1831128071 |4 aut | |
| 700 | 1 | |a Haltenhof, G. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Faenza, A. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Imperatore, F. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Bunse, Lukas |d 1988- |e VerfasserIn |0 (DE-588)1051941229 |0 (DE-627)787187399 |0 (DE-576)407600426 |4 aut | |
| 700 | 1 | |a Lindner, J. M. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Harbottle, R. P. |e VerfasserIn |4 aut | |
| 700 | 1 | |a Ratliff, Miriam |d 1979- |e VerfasserIn |0 (DE-588)1012081028 |0 (DE-627)660894602 |0 (DE-576)344899357 |4 aut | |
| 700 | 1 | |a Offringa, Rienk |e VerfasserIn |0 (DE-588)1066807485 |0 (DE-627)817963391 |0 (DE-576)426161424 |4 aut | |
| 700 | 1 | |a Poschke, Isabel |e VerfasserIn |0 (DE-588)1143622111 |0 (DE-627)1002893240 |0 (DE-576)495086711 |4 aut | |
| 700 | 1 | |a Platten, Michael |d 1971- |e VerfasserIn |0 (DE-588)121627780 |0 (DE-627)081431848 |0 (DE-576)261969811 |4 aut | |
| 700 | 1 | |a Green, Edward W. |e VerfasserIn |0 (DE-588)1207577499 |0 (DE-627)169408163X |4 aut | |
| 773 | 0 | 8 | |i Enthalten in |t Nature biotechnology |d New York, NY : Springer Nature, 1996 |g 43(2025), 1, Seite 134-142 |h Online-Ressource |w (DE-627)30339370X |w (DE-600)1494943-X |w (DE-576)080887171 |x 1546-1696 |7 nnas |a Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapy |
| 773 | 1 | 8 | |g volume:43 |g year:2025 |g number:1 |g pages:134-142 |g extent:9 |a Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapy |
| 856 | 4 | 0 | |u https://doi.org/10.1038/s41587-024-02161-y |x Verlag |x Resolving-System |z kostenfrei |3 Volltext |7 0 |
| 856 | 4 | 0 | |u https://www.nature.com/articles/s41587-024-02161-y |x Verlag |z kostenfrei |3 Volltext |7 0 |
| 951 | |a AR | ||
| 992 | |a 20240731 | ||
| 993 | |a Article | ||
| 994 | |a 2025 | ||
| 998 | |g 1207577499 |a Green, Edward W. |m 1207577499:Green, Edward W. |d 50000 |e 50000PG1207577499 |k 0/50000/ |p 17 |y j | ||
| 998 | |g 121627780 |a Platten, Michael |m 121627780:Platten, Michael |d 60000 |d 62700 |e 60000PP121627780 |e 62700PP121627780 |k 0/60000/ |k 1/60000/62700/ |p 16 | ||
| 998 | |g 1143622111 |a Poschke, Isabel |m 1143622111:Poschke, Isabel |d 50000 |e 50000PP1143622111 |k 0/50000/ |p 15 | ||
| 998 | |g 1066807485 |a Offringa, Rienk |m 1066807485:Offringa, Rienk |d 910000 |d 910200 |e 910000PO1066807485 |e 910200PO1066807485 |k 0/910000/ |k 1/910000/910200/ |p 14 | ||
| 998 | |g 1012081028 |a Ratliff, Miriam |m 1012081028:Ratliff, Miriam |d 60000 |d 62600 |e 60000PR1012081028 |e 62600PR1012081028 |k 0/60000/ |k 1/60000/62600/ |p 13 | ||
| 998 | |g 1051941229 |a Bunse, Lukas |m 1051941229:Bunse, Lukas |d 60000 |d 62700 |e 60000PB1051941229 |e 62700PB1051941229 |k 0/60000/ |k 1/60000/62700/ |p 10 | ||
| 998 | |g 127827183X |a De Roia, Alice |m 127827183X:De Roia, Alice |d 60000 |d 62700 |e 60000PD127827183X |e 62700PD127827183X |k 0/60000/ |k 1/60000/62700/ |p 6 | ||
| 998 | |g 133747469X |a Rodriguez Ehrenfried, Aaron |m 133747469X:Rodriguez Ehrenfried, Aaron |d 140000 |e 140000PR133747469X |k 0/140000/ |p 5 | ||
| 998 | |g 1215229836 |a Meng, Zibo |m 1215229836:Meng, Zibo |d 910000 |d 910200 |e 910000PM1215229836 |e 910200PM1215229836 |k 0/910000/ |k 1/910000/910200/ |p 4 | ||
| 998 | |g 125452441X |a Tan, Chin Leng |m 125452441X:Tan, Chin Leng |d 50000 |e 50000PT125452441X |k 0/50000/ |p 1 |x j | ||
| 999 | |a KXP-PPN1897194315 |e 4561110666 | ||
| BIB | |a Y | ||
| SER | |a journal | ||
| JSO | |a {"name":{"displayForm":["C.L. Tan, K. Lindner, T. Boschert, Z. Meng, A. Rodriguez Ehrenfried, A. De Roia, G. Haltenhof, A. Faenza, F. Imperatore, L. Bunse, J.M. Lindner, R.P. Harbottle, M. Ratliff, R. Offringa, I. Poschke, M. Platten & E.W. Green"]},"id":{"doi":["10.1038/s41587-024-02161-y"],"eki":["1897194315"]},"recId":"1897194315","physDesc":[{"extent":"9 S.","noteIll":"lllustrationen"}],"person":[{"given":"Chin Leng","role":"aut","family":"Tan","display":"Tan, Chin Leng"},{"display":"Lindner, K.","given":"K.","role":"aut","family":"Lindner"},{"family":"Boschert","role":"aut","given":"T.","display":"Boschert, T."},{"display":"Meng, Zibo","family":"Meng","role":"aut","given":"Zibo"},{"display":"Rodríguez Ehrenfried, Aaron","family":"Rodríguez Ehrenfried","given":"Aaron","role":"aut"},{"role":"aut","given":"Alice","family":"De Roia","display":"De Roia, Alice"},{"display":"Haltenhof, G.","family":"Haltenhof","given":"G.","role":"aut"},{"role":"aut","given":"A.","family":"Faenza","display":"Faenza, A."},{"family":"Imperatore","given":"F.","role":"aut","display":"Imperatore, F."},{"display":"Bunse, Lukas","family":"Bunse","given":"Lukas","role":"aut"},{"role":"aut","given":"J. M.","family":"Lindner","display":"Lindner, J. M."},{"display":"Harbottle, R. P.","role":"aut","given":"R. P.","family":"Harbottle"},{"role":"aut","given":"Miriam","family":"Ratliff","display":"Ratliff, Miriam"},{"given":"Rienk","role":"aut","family":"Offringa","display":"Offringa, Rienk"},{"family":"Poschke","role":"aut","given":"Isabel","display":"Poschke, Isabel"},{"family":"Platten","given":"Michael","role":"aut","display":"Platten, Michael"},{"display":"Green, Edward W.","role":"aut","given":"Edward W.","family":"Green"}],"relHost":[{"part":{"pages":"134-142","extent":"9","text":"43(2025), 1, Seite 134-142","issue":"1","year":"2025","volume":"43"},"title":[{"subtitle":"the science and business of biotechnology","title_sort":"Nature biotechnology","title":"Nature biotechnology"}],"id":{"issn":["1546-1696"],"eki":["30339370X"],"zdb":["1494943-X"]},"note":["Gesehen am 18.07.2023"],"type":{"bibl":"periodical","media":"Online-Ressource"},"language":["eng"],"pubHistory":["Volume 14, issue 3 (March 1996)-"],"origin":[{"publisher":"Springer Nature ; Nature America","dateIssuedDisp":"[1996]-","publisherPlace":"New York, NY ; New York, NY"}],"disp":"Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapyNature biotechnology","recId":"30339370X","physDesc":[{"extent":"Online-Ressource"}]}],"origin":[{"dateIssuedKey":"2025","dateIssuedDisp":"2025"}],"title":[{"title_sort":"Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapy","title":"Prediction of tumor-reactive T cell receptors from scRNA-seq data for personalized T cell therapy"}],"note":["Online veröffentlicht: 7 März 2024","Gesehen am 31.07.2024"],"language":["eng"],"type":{"bibl":"article-journal","media":"Online-Ressource"}} | ||
| SRT | |a TANCHINLENPREDICTION2025 | ||