In Silico Prediction of Volume of Distribution in Humans. Extensive Data Set and the Exploration of Linear and Nonlinear Methods Coupled with Molecular Interaction Fields Descriptors.
We present three in silico volume of distribution at steady state (VDss) models generated on a training set comprising 1096 compounds, which goes well beyond the conventional drug space delineated by the Rule of 5 or similar approaches. We have performed a careful selection of descriptors and kept a homogeneous Molecular Interaction Field-based descriptor set and linear (Partial Least Squares, PLS) and nonlinear (Random Forest, RF) models. We have tested the models, which we deem orthogonal in nature due to different descriptors and statistical approaches, with good results. In particular we tested the RF model, via a leave-class-out approach and by using a set of 34 additional compounds not used for training. We report comparable results against in vivo scaling approaches with geometric mean-fold error at or below 2 (for a set of 60 compounds with animal data available) and discuss the predictive performance based on the ionization states of the compounds. Lastly, we report the findings using a two-tier approach (classification followed by regression) based on VDss ranges, in an attempt to improve the prediction of compounds with very high VDss. We would recommend, overall, the RF model, with 33 descriptors, as the primary choice for VDss prediction in humans.
Modelling, Computation and Molecular Properties Group, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States.
Franco
F
Lombardo
Modelling, Computation and Molecular Properties Group, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States.
Yankang
Y
Jing
D000818:Animals; D003198:Computer Simulation; D055808:Drug Discovery / Q000379:methods*; D006801:Humans; D016014:Linear Models; D008954:Models, Biological; D004364:Pharmaceutical Preparations / Q000737:chemistry*; D010599:Pharmacokinetics
D004364:Pharmaceutical Preparations