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arXiv:1704.01212cs.LG

Neural Message Passing for Quantum Chemistry

Justin Gilmer, Samuel S. Schoenholz, Patrick F. Riley, Oriol Vinyals, George E. Dahl

Abstract

Supervised learning on molecules has incredible potential to be useful in chemistry, drug discovery, and materials science. Luckily, several promising and closely related neural network models invariant to molecular symmetries have already been described in the literature. These models learn a message passing algorithm and aggregation procedure to compute a function of their entire input graph. At this point, the next step is to find a particularly effective variant of this general approach and apply it to chemical prediction benchmarks until we either solve them or reach the limits of the approach. In this paper, we reformulate existing models into a single common framework we call Message Passing Neural Networks (MPNNs) and explore additional novel variations within this framework. Using MPNNs we demonstrate state of the art results on an important molecular property prediction benchmark; these results are strong enough that we believe future work should focus on datasets with larger molecules or more accurate ground truth labels.

arXiv comments
14 pages
Journal reference
DOI
Subjects
cs.LGMachine Learning

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    • https://colah.github.io/posts/2015-08-Understanding-LSTMs/ https://papers.nips.cc/paper/2012/hash/c399862d3b9d6b76c8436... https://papers.nips.cc/paper_files/paper/2012/file/c399862d3... https://arxiv.org/pdf/1512.03385 https://arxiv.org/pdf/1511.07122…

      gooobView on HNParent context

    • No need stupid moving texts. CS231n: Convolutional Neural Networks for Visual Recognition - https://cs231n.github.io/ The Unreasonable Effectiveness of Recurrent Neural Networks - https://karpathy.github.io/2015/05/21/rnn-effectiveness/ Understanding LSTM Networks…

      cute_boiView on HNParent context

    • a backup just in case https://nlp.seas.harvard.edu/annotated-transformer/ https://scottaaronson.blog/?p=762 https://karpathy.github.io/2015/05/21/rnn-effectiveness/ https://colah.github.io/posts/2015-08-Understanding-LSTMs/ https://arxiv.org/pdf/1409.2329.pdf…

      is_trueView on HNParent context

    • Has the author looked at how GNNs are used in say predicting molecular properties[1] or molecule generation[2]? GNNs are the state of the art on those tasks and those problems are certainly much harder than the Cora/Citeseer/etc semisupervised node label prediction tasks. [1]…

      eachroView on HNParent context

    • My PyTorch hackathon submission. Basically I am showing that how PDEs on graphs can be solved with Message Passing class of torch_geometric and created a tool torch_pdegraph to facilitate this. I work in the field of PDEs on graphs and I realized that Message passagin equation…

      amitoz_azadView on HNParent context

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