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Designing a network to learn a molecule structure given its physical/chemical properties is a hard problem, but is useful for drug discovery tasks. In this paper, we incorporate higher-order relational learning of Factor Graphs with strong approximation power of Neural Networks to create a molecule-structure learning network that has strong generalization power and can enforce higher-order relationship and valence constraints. We further propose methods to tackle problems such as the efficient design of factor nodes, conditional parameter sharing among factors, and symmetry problems in molecule structure prediction. Our experiment evaluation shows that the factor learning is effective and outperforms related methods.
Most of the successful deep neural network architectures are structured, often consisting of elements like convolutional neural networks and gated recurrent neural networks. Recently, graph neural networks have been successfully applied to graph stru
The central challenge in automated synthesis planning is to be able to generate and predict outcomes of a diverse set of chemical reactions. In particular, in many cases, the most likely synthesis pathway cannot be applied due to additional constrain
In graph neural networks (GNNs), message passing iteratively aggregates nodes information from their direct neighbors while neglecting the sequential nature of multi-hop node connections. Such sequential node connections e.g., metapaths, capture crit
Recently, Graph Neural Network (GNN) has achieved remarkable success in various real-world problems on graph data. However in most industries, data exists in the form of isolated islands and the data privacy and security is also an important issue. I
Molecule optimization is a fundamental task for accelerating drug discovery, with the goal of generating new valid molecules that maximize multiple drug properties while maintaining similarity to the input molecule. Existing generative models and rei