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A de novo molecular generation method using latent vector based generative adversarial network.


ABSTRACT: Deep learning methods applied to drug discovery have been used to generate novel structures. In this study, we propose a new deep learning architecture, LatentGAN, which combines an autoencoder and a generative adversarial neural network for de novo molecular design. We applied the method in two scenarios: one to generate random drug-like compounds and another to generate target-biased compounds. Our results show that the method works well in both cases. Sampled compounds from the trained model can largely occupy the same chemical space as the training set and also generate a substantial fraction of novel compounds. Moreover, the drug-likeness score of compounds sampled from LatentGAN is also similar to that of the training set. Lastly, generated compounds differ from those obtained with a Recurrent Neural Network-based generative model approach, indicating that both methods can be used complementarily.

SUBMITTER: Prykhodko O 

PROVIDER: S-EPMC6892210 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature

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A de novo molecular generation method using latent vector based generative adversarial network.

Prykhodko Oleksii O   Johansson Simon Viet SV   Kotsias Panagiotis-Christos PC   Arús-Pous Josep J   Bjerrum Esben Jannik EJ   Engkvist Ola O   Chen Hongming H  

Journal of cheminformatics 20191203 1


Deep learning methods applied to drug discovery have been used to generate novel structures. In this study, we propose a new deep learning architecture, LatentGAN, which combines an autoencoder and a generative adversarial neural network for de novo molecular design. We applied the method in two scenarios: one to generate random drug-like compounds and another to generate target-biased compounds. Our results show that the method works well in both cases. Sampled compounds from the trained model  ...[more]

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