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Frameshift events predict anti–PD-1/L1 response in head and neck cancer
Glenn J. Hanna, Patrick Lizotte, Megan Cavanaugh, Frank C. Kuo, Priyanka Shivdasani, Alexander Frieden, Nicole G. Chau, Jonathan D. Schoenfeld, Jochen H. Lorch, Ravindra Uppaluri, Laura E. MacConaill, Robert I. Haddad
Glenn J. Hanna, Patrick Lizotte, Megan Cavanaugh, Frank C. Kuo, Priyanka Shivdasani, Alexander Frieden, Nicole G. Chau, Jonathan D. Schoenfeld, Jochen H. Lorch, Ravindra Uppaluri, Laura E. MacConaill, Robert I. Haddad
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Research Article Genetics Oncology

Frameshift events predict anti–PD-1/L1 response in head and neck cancer

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Abstract

Programmed cell death protein 1 (PD-1) inhibitors have efficacy in treating squamous cell carcinoma of the head and neck (SCCHN), but objective response rates are low. PD-1 ligand (PD-L1) expression alone is not considered a robust predictor of response and additional biomarkers are needed. This 3-year observational cohort followed 126 SCCHN patients treated with anti–PD-1/L1 therapy. Prior to treatment, 81 (64%) had targeted massively parallel tumor sequencing. Of these, 42 (52%) underwent fluorescence-activated cell sorting and PD-L1 immunohistochemistry for tumor immunoprofiling. Six (5%) complete responses (CRs) and 11 (9%) partial responses (PRs) were observed. Those treated with prior chemotherapy (98, 78%) versus only surgery and/or radiation had longer overall survival (OS) (10 vs. 3 months, P = 0.02). Smokers had a higher total mutational burden (TMB) (P = 0.01). Virus-positive patients had a lower TMB (P < 0.01) and improved OS (P = 0.02). Among virus-negative responders, NOTCH1 and SMARCA4 were more frequently mutated and frameshift events in tumor suppressor genes occurred more frequently (P = 0.03). Higher TMB and CD8+ T cell infiltrates predicted anti–PD-1/L1 benefit (P < 0.01, P < 0.01, respectively) among virus-negative tumors. TIM-3/LAG-3 coexpression with PD-1 was higher on T cells among nonresponders (P = 0.03 and 0.02, respectively). Somatic frameshift events in tumor suppressor genes and higher TMB among virus-negative SCCHN tumors predict anti–PD-1/L1 response.

Authors

Glenn J. Hanna, Patrick Lizotte, Megan Cavanaugh, Frank C. Kuo, Priyanka Shivdasani, Alexander Frieden, Nicole G. Chau, Jonathan D. Schoenfeld, Jochen H. Lorch, Ravindra Uppaluri, Laura E. MacConaill, Robert I. Haddad

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Figure 1

Correlating total mutational burden with response to PD-1/L1 blockade in SCCHN.

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Correlating total mutational burden with response to PD-1/L1 blockade in...
(A) Normalized total mutational burden (TMB) among tumor samples (n = 81) arranged from highest to lowest according to anti–PD-1/L1 response. A (+) denotes virus-positive disease. Responders show significantly increased TMB compared with nonresponders. HPV-negative patients with higher TMB demonstrate prolonged overall survival (OS). Greater TMB among (B) former or current (F/C) smokers compared with never (N) smokers, and (C) among patients with virus-mediated [HPV or EBV] disease. SCCHN, squamous cell carcinoma of the head and neck; CR, complete response; PR, partial response; SD, stable disease; PD, progressive disease; EBV, Epstein-Barr virus; HPV, human papillomavirus. Horizontal bars show median and 95% confidence intervals. Mann-Whitney U test, log-rank testing.

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