Bias-correction of regression models: a case study on hERG inhibition.
In the present work we develop a predictive QSAR model for the blockade of the hERG channel. Additionally, this specific end point is used as a test scenario to develop and evaluate several techniques for fusing predictions from multiple regression models. hERG inhibition models which are presented here are based on a combined data set of roughly 550 proprietary and 110 public domain compounds. Models are built using various statistical learning techniques and different sets of molecular descriptors. Single Support Vector Regression, Gaussian Process, or Random Forest models achieve root mean-squared errors of roughly 0.6 log units as determined from leave-group-out cross-validation. An analysis of the evaluation strategy on the performance estimates shows that standard leave-group-out cross-validation yields overly optimistic results. As an alternative, a clustered cross-validation scheme is introduced to obtain a more realistic estimate of the model performance. The evaluation of several techniques to combine multiple prediction models shows that the root mean squared error as determined from clustered cross-validation can be reduced from 0.73 +/- 0.01 to 0.57 +/- 0.01 using a local bias correction strategy.
Hansen
Katja
K
University of Technology, Berlin, Germany.
Rathke
Fabian
F
Schroeter
Timon
T
Rast
Georg
G
Fox
Thomas
T
Kriegl
Jan M
JM
Mika
Sebastian
S
D004353:Drug Evaluation, Preclinical; D051638:Ether-A-Go-Go Potassium Channels / Q000037:antagonists & inhibitors*; D006801:Humans; D020128:Inhibitory Concentration 50; D016571:Neural Networks, Computer; D026902:Potassium Channel Blockers / Q000737:chemistry / Q000494:pharmacology; D021281:Quantitative Structure-Activity Relationship; D012044:Regression Analysis; D015203:Reproducibility of Results
D051638:Ether-A-Go-Go Potassium Channels; D026902:Potassium Channel Blockers