Transcriptomic signatures of tumors undergoing T cell attack

Research output: Contribution to journalJournal articleResearchpeer-review

Documents

  • Fulltext

    Accepted author manuscript, 6.58 MB, PDF document

  • Aishwarya Gokuldass
  • Aimilia Schina
  • Martin Lauss
  • Katja Harbst
  • Christopher Aled Chamberlain
  • Arianna Draghi
  • Marie Christine Wulff Westergaard
  • Morten Nielsen
  • Krisztian Papp
  • Zsofia Sztupinszki
  • Istvan Csabai
  • Svane, Inge Marie
  • Zoltan Szallasi
  • Göran Jönsson
  • dqp123, dqp123

Background: Studying tumor cell–T cell interactions in the tumor microenvironment (TME) can elucidate tumor immune escape mechanisms and help predict responses to cancer immunotherapy. Methods: We selected 14 pairs of highly tumor-reactive tumor-infiltrating lymphocytes (TILs) and autologous short-term cultured cell lines, covering four distinct tumor types, and co-cultured TILs and tumors at sub-lethal ratios in vitro to mimic the interactions occurring in the TME. We extracted gene signatures associated with a tumor-directed T cell attack based on transcriptomic data of tumor cells. Results: An autologous T cell attack induced pronounced transcriptomic changes in the attacked tumor cells, partially independent of IFN-γ signaling. Transcriptomic changes were mostly independent of the tumor histological type and allowed identifying common gene expression changes, including a shared gene set of 55 transcripts influenced by T cell recognition (Tumors undergoing T cell attack, or TuTack, focused gene set). TuTack scores, calculated from tumor biopsies, predicted the clinical outcome after anti-PD-1/anti-PD-L1 therapy in multiple tumor histologies. Notably, the TuTack scores did not correlate to the tumor mutational burden, indicating that these two biomarkers measure distinct biological phenomena. Conclusions: The TuTack scores measure the effects on tumor cells of an anti-tumor immune response and represent a comprehensive method to identify immunologically responsive tumors. Our findings suggest that TuTack may allow patient selection in immunotherapy clinical trials and warrant its application in multimodal biomarker strategies.

Original languageEnglish
JournalCancer Immunology, Immunotherapy
Volume71
Issue number3
Pages (from-to)553-563
Number of pages11
ISSN0340-7004
DOIs
Publication statusPublished - 2022

Bibliographical note

Publisher Copyright:
© 2021, The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature.

    Research areas

  • Adaptive immune resistance, Anti-PD-1, Anti-PD-L1, Immunotherapy biomarkers, Patient selection, Transcriptomics

ID: 313475029