English

Revving up 13C NMR shielding predictions across chemical space: Benchmarks for atoms-in-molecules kernel machine learning with new data for 134 kilo molecules

Chemical Physics 2020-12-04 v3 Data Analysis, Statistics and Probability

Abstract

The requirement for accelerated and quantitatively accurate screening of nuclear magnetic resonance spectra across the small molecules chemical compound space is two-fold: (1) a robust `local' machine learning (ML) strategy capturing the effect of neighbourhood on an atom's `near-sighted' property -- chemical shielding; (2) an accurate reference dataset generated with a state-of-the-art first principles method for training. Herein we report the QM9-NMR dataset comprising isotropic shielding of over 0.8 million C atoms in 134k molecules of the QM9 dataset in gas and five common solvent phases. Using these data for training, we present benchmark results for the prediction transferability of kernel-ridge regression models with popular local descriptors. Our best model trained on 100k samples, accurately predict isotropic shielding of 50k `hold-out' atoms with a mean error of less than 1.91.9 ppm. For rapid prediction of new query molecules, the models were trained on geometries from an inexpensive theory. Furthermore, by using a Δ\Delta-ML strategy, we quench the error below 1.41.4 ppm. Finally, we test the transferability on non-trivial benchmark sets that include benchmark molecules comprising 10 to 17 heavy atoms and drugs.

Keywords

Cite

@article{arxiv.2009.06814,
  title  = {Revving up 13C NMR shielding predictions across chemical space: Benchmarks for atoms-in-molecules kernel machine learning with new data for 134 kilo molecules},
  author = {Amit Gupta and Sabyasachi Chakraborty and Raghunathan Ramakrishnan},
  journal= {arXiv preprint arXiv:2009.06814},
  year   = {2020}
}