A comprehensive evaluation of regression-based drug responsiveness prediction models, using cell viability inhibitory concentrations (IC50 values)
- Authors
- Park, Aron; Joo, Minjae; Kim, Kyungdoc; Son, Won-Joon; Lim, GyuTae; Lee, Jinhyuk; Kim, Jung Ho; Lee, Dae Ho; Nam, Seungyoon
- Issue Date
- Apr-2022
- Publisher
- OXFORD UNIV PRESS
- Citation
- BIOINFORMATICS, v.38, no.10, pp.2810 - 2817
- Journal Title
- BIOINFORMATICS
- Volume
- 38
- Number
- 10
- Start Page
- 2810
- End Page
- 2817
- URI
- https://scholarworks.bwise.kr/gachon/handle/2020.sw.gachon/84356
- DOI
- 10.1093/bioinformatics/btac177
- ISSN
- 1367-4803
- Abstract
- Motivation: Predicting drug response is critical for precision medicine. Diverse methods have predicted drug responsiveness, as measured by the half-maximal drug inhibitory concentration (IC50), in cultured cells. Although IC5Os are continuous, traditional prediction models have dealt mainly with binary classification of responsiveness. However, since there are few regression-based IC50 predictions, comprehensive evaluations of regression-based IC50 prediction models, including machine learning (ML) and deep learning (DL), for diverse data types and dataset sizes, have not been addressed. Results: Here, we constructed 11 input data settings, including multi-omics settings, with varying dataset sizes, then evaluated the performance of regression-based ML and DL models to predict IC50s. DL models considered two convolutional neural network architectures: CDRScan and residual neural network (ResNet). ResNet was introduced in regression-based DL models for predicting drug response for the first time. As a result, DL models performed better than ML models in all the settings. Also, ResNet performed better than or comparable to CDRScan and ML models in all settings.
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Collections - 바이오나노대학 > 생명과학과 > 1. Journal Articles
- 의과대학 > 의학과 > 1. Journal Articles
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