key: cord-0026424-050hbdf5 authors: Jing, Ying; Chen, Xue; Li, Kunyan; Liu, Yaoming; Zhang, Zhao; Chen, Yiqing; Liu, Yuan; Wang, Yushu; Lin, Steven H; Diao, Lixia; Wang, Jing; Lou, Yanyan; Johnson, Douglas B; Chen, Xiang; Liu, Hong; Han, Leng title: Association of antibiotic treatment with immune-related adverse events in patients with cancer receiving immunotherapy date: 2022-01-19 journal: J Immunother Cancer DOI: 10.1136/jitc-2021-003779 sha: 5a30f93201a3ed13d244f144ef05d6e82eb61df6 doc_id: 26424 cord_uid: 050hbdf5 BACKGROUND: To determine whether antibiotic treatment is a risk factor for immune-related adverse events (irAEs) across different patients with cancer receiving anti-PD-1/PD-L1 therapies. METHODS: The retrospective analysis includes clinical information from 767 patients with cancer treated at Hunan Cancer Hospital from 2017 to 2020. The pharmacovigilance data analysis includes individual cases of 38,705 safety reports from the US Food and Drug Administration Adverse Event Reporting System (FAERS) from 2014 to 2020, and 25,122 cases of safety reports from the World Health Organization database VigiBase from 2014 to 2019. All cases that received anti-PD-1/PD-L1 treatment were included. Multiomics data from patients across 25 cancer types were download from The Cancer Genome Atlas. Logistic regression and propensity score algorithm was employed to calculate OR of irAEs. RESULTS: Retrospective analysis of in-house patients showed that irAE potential risks are higher in all cancer (OR 2.12, 95% CI 1.38 to 3.22, false discovery rate (FDR) adjusted-p=1.93×10(−3)) and patients with lung cancer (OR 3.16, 95% CI 1.67 to 5.95, FDR adjusted-p=1.93×10(−3)) when using antibiotics. Potential risk of irAEs in patients with lung cancer with antibiotic treatment is significantly higher in FAERS (OR 1.39, 95% CI 1.21 to 1.59; FDR adjusted-p=1.62×10(−5)) and VigiBase (OR 1.32, 95% CI 1.09 to 1.59, FDR adjusted-p=0.05). Mechanistically, decreased microbial diversity caused by antibiotics use may increase the irAE risk through mediating the irAE-related factors. CONCLUSIONS: Our study is the first to comprehensively demonstrate the associations of irAEs and antibiotic during anti-PD-1/PD-L1 therapy across a wide spectrum of cancers by analyzing multisource data. Administration of antibiotics should be carefully evaluated in patients with cancer treated by anti-PD-1/PD-L1 to avoid potentially increasing irAE risk. pharmacovigilance data analysis includes individual cases of 38,705 safety reports from the US Food and Drug Administration Adverse Event Reporting System (FAERS) from 2014 to 2020, and 25,122 cases of safety reports from the World Health Organization database VigiBase from 2014 to 2019. All cases that received anti-PD-1/PD-L1 treatment were included. Multiomics data from patients across 25 cancer types were download from The Cancer Genome Atlas. Logistic regression and propensity score algorithm was employed to calculate OR of irAEs. Results Retrospective analysis of in-house patients showed that irAE potential risks are higher in all cancer (OR 2.12, 95% CI 1.38 to 3.22, false discovery rate (FDR) adjusted-p=1.93×10 −3 ) and patients with lung cancer (OR 3.16, 95% CI 1.67 to 5.95, FDR adjusted-p=1.93×10 −3 ) when using antibiotics. Potential risk of irAEs in patients with lung cancer with antibiotic treatment is significantly higher in FAERS (OR 1.39, 95% CI 1.21 to 1.59; FDR adjusted-p=1.62×10 −5 ) and VigiBase (OR 1.32, 95% CI 1.09 to 1.59, FDR adjusted-p=0.05). Mechanistically, decreased microbial diversity caused by antibiotics use may increase the irAE risk through mediating the irAErelated factors. Conclusions Our study is the first to comprehensively demonstrate the associations of irAEs and antibiotic during anti-PD-1/PD-L1 therapy across a wide spectrum of cancers by analyzing multisource data. Administration of antibiotics should be carefully evaluated in patients with cancer treated by anti-PD-1/PD-L1 to avoid potentially increasing irAE risk. Immune checkpoint inhibitors (ICIs) have shown striking benefit in a wide spectrum of cancer types, but may also lead to a series of immune-related adverse events (irAEs) that may affect any organ. [1] [2] [3] Severe and fatal irAEs have been reported, 4-6 such as myocarditis, 5 6 pneumonitis, 4 and colitis. 4 These immune-related toxicities limit the benefits of ICIs and could lead to discontinuation of ICIs. 7 8 A comprehensive understanding of irAEs induced by immunotherapy is important for managing the benefit/risk ratio of immunotherapy. 9 Exposure to antibiotics has been associated with less clinical benefit from ICIs in lung cancer, 10 11 melanoma 11 and renal cell carcinoma. 10 However, there is minimal evidence about the association between irAE development and antibiotic use in ICI patients. 12 13 Previous studies reported that antibiotic use is associated with higher risk of diarrhea and colitis, which are among gastrointestinal irAEs, in ICI patients. 12 13 However, it is not clear whether antibiotic use impacts irAEs in organs other than the gastrointestinal tract during ICI treatment. Therefore, a comprehensive, in-depth characterization of the association of irAEs with antibiotic treatment is crucial. In this study, we retrospectively analyzed clinical information of ICI patients within an in-house patient cohort and observed increased risk of irAEs in lung cancer ICI patients who were given antibiotics. To obtain a more generalized conclusion, we took advantage of large-scale pharmacovigilance data from the US Food and Drug Administration Adverse Event Reporting System (FAERS) and the WHO pharmacovigilance database (VigiBase) and observed similar pattern for specific irAEs. Recent studies demonstrated the impact of human microbiomes on cancer progression and therapy, [14] [15] [16] so we further obtained the microbial data from The Cancer Genome Atlas (TCGA) to understand the potential underlie mechanism through multiomics data. Taken together, our study employed multisource Open access evidence aiming to investigate the administration of antibiotics and increasing irAE risk in patients with cancer treated by anti-PD-1/PD-L1. We performed a retrospective analysis of 767 patients with cancer treated with anti-PD-1/anti-PD-L1 at Hunan Cancer Hospital,the Affiliated Cancer Hospital of Xiangya School of Medicine between 2017 and 2020. Clinical information, including age at diagnosis, sex, cancer types, response, clinical interventions, duration of ICI treatment, history of antibiotic treatment, and ICI drug and combinations, was obtained from the medical records. Data regarding irAEs were collected, including type, symptoms, and grade of irAEs (according to common terminology criteria for adverse events, V.4.0). Patients who received antibiotics within 3 months before or after the first ICI administration were identified as antibiotic users according to previous studies. 12 13 17 Specifically, patients who received antibiotics within 3 months before the first dose of ICIs were classified as pre-ICI group. Multivariable logistic regression models were employed to calculate the adjusted OR. [18] [19] [20] The variables analyzed in the model were age, sex, ICI drugs and combination therapy. Individual adverse event (AE) reports between July 1, 2014 and June 30, 2020 were downloaded from the FAERS website (https://www.fda.gov/drugs/questionsand-answers-fdas-adverse-event-reporting-system-faers/ fda-adverse-event-reporting-system-faers-public-dashboard) and reports between July 1, 2014 and December 31, 2019 were queried from VigiBase (https://www.whoumc.org/vigibase/vigibase/). We collected AE reports from anti-PD-1 agents (nivolumab, pembrolizumab, cemiplimab) and anti-PD-L1 agents (atezolizumab, avelumab, durvalumab) suspected of causing AEs across different cancer types, as previously described. 21 Patients who received antibiotics during the anti-PD-1/PD-L1 therapies were identified as antibiotic users. Patients with only one clearly defined cancer type were included. Patients of ages 0-100 years were included. Cases for which the patient's sex was not reported were excluded. Adjusted ORs of irAEs based on FAERS data were analyzed by multivariable logistic regression. [18] [19] [20] The variables analyzed in the model were age, sex, antibiotic use, and different ICI drugs. Considering that pharmacovigilance data records does not allow to obtain results on 'risk' to individual patients due to the intrinsic limitations of the database, we only obtain results on potential risk through calculating OR. We used the AE terms in peer-reviewed management guidelines 22 to define irAEs, including hepatitis, Stevens-Johnson syndrome, and colitis (online supplemental table S1) to determine patients with irAEs. This prespecified list is one of the most comprehensive and accurate irAE list so far, at least under the immunotherapy settings. Patients were classified into the irAE group if they had at least one irAE from this guideline. The irAEs were grouped into primary system organ classes based on the Medical Dictionary for Drug Regulatory Activities, V.23.0. Microbial diversity and molecular data from TCGA Microbial reads data of TCGA samples were obtained from a previous study. 23 Inverse Simpson index were calculated from all microbial reads in each sample via 'diversity' function in R package 'vegan'. We analyzed omics data from TCGA for 25 cancer types with ≥100 samples. The irAE information is lacking in TCGA for individual patients, so we investigate the associations between microbial diversity and previously reported irAE-related factors and signatures: tumor mutational burden (TMB), 24 T cell receptor (TCR) diversity, 25 neutrophils, 26 eosinophils, 26 CEACAM1, 26 CD177, 26 interferon (IFN) alpha response, 27 tumor necrosis factor (TNF) signature, 27 cytolytic activity, 21 ADPGK, 21 LCP1, 21 PD-1, 21 and potential pathway 28 related to T cell activation, neutrophil activation, eosinophils, and inflammation. Molecular data, including mRNA expression and mutations, were downloaded from TCGA data portal (https://portal.gdc.cancer. gov/). T-cell receptor diversity, and estimated immune cell abundance were downloaded from the Genomic Data Commons (GDC) PanImmune Data Portal (https://gdc. cancer.gov/about-data/publications/panimmune). 29 TMB was calculated by the number of non-silent somatic mutations per sample. 30 Pathways related to T-cell activation, neutrophil activation, eosinophil activation and inflammation, and IFN α response were obtained from MSigDB (http:// software.broadinstitute.org/gsea/msigdb/genesets.jsp); TNF signatures were obtained from Perez-Ruiz et al. 31 IFN γ signature was obtained from Ayers et al. 32 TNF signature and IFN γ signature were calculated using the GSVA 33 R package. Spearman correlation were performed to analyze the associations between microbial diversity and omics data. Pathway enrichment was conducted using the R package 'clusterprofiler'. 34 Genes with absolute Rs value≥0.3 and false discovery rate (FDR)-adjusted p<0.05, obtained from spearman correlation, were used in pathway enrichment. Multiple comparisons were Benjamini-Hochberg adjusted by passing the test p values to the 'p.adjust' function of the 'stats' R package. All reported p values are two sided; FDR-adjusted p<0.1 and p<0.05 were considered significant. Data processing and statistical analyses were performed using R statistical software V.3.5.1. We conducted retrospective analysis of 767 patients with cancer receiving anti-PD-1/PD-L1 therapy in an in-house patient cohort ( figure 1A ). Among these patients, 340 Open access were patients with lung cancer (44.3%, table 1) and 107 were patients with liver cancer (14.0%, table 1). Patients who received antibiotics treatment were classified as antibiotic users. We used multivariable logistic regression analysis, adjusting for age, sex, ICI drug, and combination therapy to identify the association between antibiotic treatment and irAEs. We observed that antibiotic use increased irAE risk in all patients with cancer (adjusted OR 2.12, 95% CI 1.38 to 3.22, FDR-adjusted p=1.93×10 −3 , figure 1B ). However, this significant association was likely driven by patients with lung cancer (OR 3.16, 95% CI 1.67 to 5.95, FDR-adjusted p=1.93×10 −3 , figure 1B) , who represented the largest sample size. We did not observe significant associations in other cancer types (figure 1B). This may be due to the limited sample size in other cancer types, and further investigations were necessary to obtain more robust results. Considering that some patients with cancer will be given antibiotics for irAE management, 22 we explored the possibility of an association between antibiotics administered within 3 months 12 13 17 before first dose of immune checkpoint inhibitor (ICI) therapy and irAEs (pre-ICI). We observed similarly significant increased irAE risk in pre-ICI group (OR 2.87, 95% CI 1.08 to 7.23; p=0.03; figure 1C ) as in patients received antibiotics at any time (figure 1B). Additional analysis on patients received antibiotics within 30 days 11 35-38 before the first dose of ICIs was performed (pre-ICI 30-days, OR 3.66, 95% CI 1.23 to 10.52; p=0.02; online supplemental figure S1). These increased risks in both pre-ICI groups with antibiotics usage suggests that the association between irAEs and antibiotic usage is unlikely to be caused by concurrent antibiotics during irAE management. Moreover, Magenta indicates that irAEs are more likely to occur in antibiotic users; cyan indicates that irAEs are more likely to occur in non-antibiotic users; shade of the dot indicates false discovery rate (FDR)-adjusted p value/p-value. Dot size from large to small respectively indicates FDR-adjusted p/p-value<0.001, 0.001