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Accepted for/Published in: JMIR Medical Informatics

Date Submitted: Dec 9, 2019
Date Accepted: Apr 15, 2020

The final, peer-reviewed published version of this preprint can be found here:

Detecting and Filtering Immune-Related Adverse Events Signal Based on Text Mining and Observational Health Data Sciences and Informatics Common Data Model: Framework Development Study

Yu Y, Ruddy K, Mansfield A, Zong N, Wen A, Tsuji S, Huang M, Liu H, Shah N, Jiang G

Detecting and Filtering Immune-Related Adverse Events Signal Based on Text Mining and Observational Health Data Sciences and Informatics Common Data Model: Framework Development Study

JMIR Med Inform 2020;8(6):e17353

DOI: 10.2196/17353

PMID: 32530430

PMCID: 7320306

Developing A Framework for Detecting and Filtering Immune-related Adverse Events Signal Based on OHDSI Common Data Model and Text Mining

  • Yue Yu; 
  • Kathryn Ruddy; 
  • Aaron Mansfield; 
  • Nansu Zong; 
  • Andrew Wen; 
  • Shintaro Tsuji; 
  • Ming Huang; 
  • Hongfang Liu; 
  • Nilay Shah; 
  • Guoqian Jiang

ABSTRACT

Background:

Immune checkpoint inhibitors are associated with unique immune-related adverse events (irAEs). Because most of the immune checkpoint inhibitors are new to the market, it is important to conduct studies using real-world data sources to investigate their safety profiles.

Objective:

To develop a framework for signal detection and filtration of novel immune-related adverse events (irAEs) for 6 FDA approved immune checkpoint inhibitors.

Methods:

In our framework, we first used the FDA Adverse Event Reporting System (FAERS) standardized in an OHDSI common data model (CDM) to collect immune checkpoint inhibitors-related event data and conducted the irAE signal detection. We then filtered those already known irAEs from drug labels and literatures by using a customized text-mining pipeline based on cTAKES with MedDRA as a dictionary. Finally, we classified the irAE detection results into three different categories to discover potentially new irAE signals.

Results:

By our text-mining pipeline, 490 irAE terms were identified from drug labels and and 918 terms were identified from literature. In addition, of the 94 positive signals detected using CDM-based FAERS, 53 signals (56.38%) were labeled signals, 10 (10.64%) were unlabeled published signals, and 31 (32.98%) were potentially new signals.

Conclusions:

We demonstrated that our approach is effective in irAE signal detection and filtration. Moreover, our framework could facilitate ADE detection and filtration toward the goal of next generation pharmacovigilance.


 Citation

Please cite as:

Yu Y, Ruddy K, Mansfield A, Zong N, Wen A, Tsuji S, Huang M, Liu H, Shah N, Jiang G

Detecting and Filtering Immune-Related Adverse Events Signal Based on Text Mining and Observational Health Data Sciences and Informatics Common Data Model: Framework Development Study

JMIR Med Inform 2020;8(6):e17353

DOI: 10.2196/17353

PMID: 32530430

PMCID: 7320306

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