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5 months ago

Accurate ADMET Prediction with XGBoost

Hao Tian; Rajas Ketkar; Peng Tao

Accurate ADMET Prediction with XGBoost

Abstract

The absorption, distribution, metabolism, excretion, and toxicity (ADMET) properties are important in drug discovery as they define efficacy and safety. In this work, we applied an ensemble of features, including fingerprints and descriptors, and a tree-based machine learning model, extreme gradient boosting, for accurate ADMET prediction. Our model performs well in the Therapeutics Data Commons ADMET benchmark group. For 22 tasks, our model is ranked first in 18 tasks and top 3 in 21 tasks. The trained machine learning models are integrated in ADMETboost, a web server that is publicly available at https://ai-druglab.smu.edu/admet.

Code Repositories

smu-tao-group/ADMET_XGBoost
Official
Mentioned in GitHub

Benchmarks

BenchmarkMethodologyMetrics
molecular-property-prediction-on-bbbp-1XGBoost
ROC-AUC: 90.5
tdc-admet-benchmarking-group-on-tdcommonsXGBoost
TDC.AMES: 0.859
TDC.BBB_Martins: 0.905
TDC.Bioavailability_Ma: 0.7
TDC.CYP2C9_Inhibition_Veith: 0.877
TDC.CYP2C9_Substrate_CarbonMangels: 0.680
TDC.CYP2D6_Inhibition_Veith: 0.794
TDC.CYP2D6_Substrate_CarbonMangels: 0.387
TDC.CYP3A4_Inhibition_Veith: 0.721
TDC.CYP3A4_Substrate_CarbonMangels: 0.648
TDC.Caco2_Wang: 0.288
TDC.Clearance_Hepatocyte_AZ: 0.587
TDC.Clearance_Microsome_AZ: 0.420
TDC.DILI: 0.933
TDC.HIA_Hou: 0.987
TDC.Half_Life_Obach: 0.396
TDC.LD50_Zhu: 0.602
TDC.Lipophilicity_AstraZeneca: 0.533
TDC.PPBR_AZ: 8.251
TDC.Pgp_Broccatelli: 0.911
TDC.Solubility_AqSolDB: 0.727
TDC.VDss_Lombardo: 0.612
TDC.hERG: 0.806

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Accurate ADMET Prediction with XGBoost | Papers | HyperAI