Related Experiment Video
Updated: Oct 16, 2025

Incorporating Target Protein Structure Flexibility and Dynamics in Computational Drug Discovery Using Ensemble-Based Docking Analysis
Published on: June 20, 2025
Active learning of potential-energy surfaces of weakly bound complexes with regression-tree ensembles
Yahya Saleh1, Vishnu Sanjay1, Armin Iske2
1Center for Free-Electron Laser Science CFEL, Deutsches Elektronen-Synchrotron DESY, Notkestraße 85, 22607 Hamburg, Germany.
Abstract:
Several pool-based active learning (AL) algorithms were employed to model potential-energy surfaces (PESs) with a minimum number of electronic structure calculations. Theoretical and empirical results suggest that superior strategies can be obtained by sampling molecular structures corresponding to large uncertainties in their predictions while at the same time not deviating much from the true distribution of the data. To model PESs in an AL framework, we propose to use a regression version of stochastic query by forest, a hybrid method that samples points corresponding to large uncertainties while avoiding collecting too many points from sparse regions of space. The algorithm is implemented with decision trees that come with relatively small computational costs. We empirically show that this algorithm requires around half the data to converge to the same accuracy in comparison to the uncertainty-based query-by-committee algorithm. Moreover, the algorithm is fully automatic and does not require any prior knowledge of the PES. Simulations on a 6D PES of pyrrole(H2O) show that <15 000 configurations are enough to build a PES with a generalization error of 16 cm-1, whereas the final model with around 50 000 configurations has a generalization error of 11 cm-1.
More Related Videos
Related Concept Videos
Conserved Binding Sites
Predicting Molecular Geometry
Regression Analysis
In regression analysis, a regression equation is determined based on the line of best fit– a line that best fits the data points plotted in a graph. This line is also called the regression line. The algebraic equation for the regression line is called the regression equation. It is represented as:
Structural Classification of Joints
A fibrous joint is where the adjacent bones are united by fibrous connective...
Regression Toward the Mean
Potential-Energy Criterion for Equilibrium

