The goal of quantitative structure activity relationship (QSAR) learning is to learn a function that, given the structure of a small molecule (a potential drug), outputs the predicted activity of... Show moreThe goal of quantitative structure activity relationship (QSAR) learning is to learn a function that, given the structure of a small molecule (a potential drug), outputs the predicted activity of the compound. We employed multi-task learning (MTL) to exploit commonalities in drug targets and assays. We used datasets containing curated records about the activity of specific compounds on drug targets provided by ChEMBL. Totally, 1091 assays have been analysed. As a baseline, a single task learning approach that trains random forest to predict drug activity for each drug target individually was considered. We then carried out feature-based and instance-based MTL to predict drug activities. We introduced a natural metric of evolutionary distance between drug targets as a measure of tasks relatedness. Instance-based MTL significantly outperformed both, feature-based MTL and the base learner, on 741 drug targets out of 1091. Feature-based MTL won on 179 occasions and the base learner performed best on 171 drug targets. We conclude that MTL QSAR is improved by incorporating the evolutionary distance between targets. These results indicate that QSAR learning can be performed effectively, even if little data is available for specific drug targets, by leveraging what is known about similar drug targets. Show less
The algorithm selection problem is to choose the most suitable algorithm for solving a given problem instance. It leverages the complementarity between different approaches that is present in many... Show moreThe algorithm selection problem is to choose the most suitable algorithm for solving a given problem instance. It leverages the complementarity between different approaches that is present in many areas of AI. We report on the state of the art in algorithm selection, as defined by the Algorithm Selection competitions in 2015 and 2017. The results of these competitions show how the state of the art improved over the years. We show that although performance in some cases is very good, there is still room for improvement in other cases. Finally, we provide insights into why some scenarios are hard, and pose challenges to the community on how to advance the current state of the art. Show less
