Balancing Molecular Information and Empirical Data in the Prediction of Physico-Chemical Properties

• URL: http://arxiv.org/abs/2406.08075v1
• Date: Wed, 12 Jun 2024 10:51:00 GMT
• Title: Balancing Molecular Information and Empirical Data in the Prediction of Physico-Chemical Properties
• Authors: Johannes Zenn, Dominik Gond, Fabian Jirasek, Robert Bamler,
• Abstract summary: We propose a general method for combining molecular descriptors with representation learning. The proposed hybrid model exploits chemical structure information using graph neural networks. It automatically detects cases where structure-based predictions are unreliable, in which case it corrects them by representation-learning based predictions.
• Score: 8.649679686652648
• License: http://creativecommons.org/licenses/by/4.0/
• Abstract: Predicting the physico-chemical properties of pure substances and mixtures is a central task in thermodynamics. Established prediction methods range from fully physics-based ab-initio calculations, which are only feasible for very simple systems, over descriptor-based methods that use some information on the molecules to be modeled together with fitted model parameters (e.g., quantitative-structure-property relationship methods or classical group contribution methods), to representation-learning methods, which may, in extreme cases, completely ignore molecular descriptors and extrapolate only from existing data on the property to be modeled (e.g., matrix completion methods). In this work, we propose a general method for combining molecular descriptors with representation learning using the so-called expectation maximization algorithm from the probabilistic machine learning literature, which uses uncertainty estimates to trade off between the two approaches. The proposed hybrid model exploits chemical structure information using graph neural networks, but it automatically detects cases where structure-based predictions are unreliable, in which case it corrects them by representation-learning based predictions that can better specialize to unusual cases. The effectiveness of the proposed method is demonstrated using the prediction of activity coefficients in binary mixtures as an example. The results are compelling, as the method significantly improves predictive accuracy over the current state of the art, showcasing its potential to advance the prediction of physico-chemical properties in general.

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