Skip to main content

Bayesian Optimization of Molecules Adsorbed to Metal Surfaces

  • Chapter
  • First Online:
Bayesian Optimization for Materials Science

Part of the book series: SpringerBriefs in the Mathematics of Materials ((BRIEFSMAMA,volume 3))

  • 1483 Accesses

Abstract

In the previous chapter, we saw how Bayesian optimization is implemented in practice by considering a diatomic molecule. Of course, there is little point in applying Bayesian optimization to such a simple system, as the full potential energy curve can be quickly calculated using simple quantum chemistry. In this chapter, we consider a more complex situation, consisting of organic molecules adsorbed to a metal surface.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

eBook
USD 16.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 16.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Perdew JP, Burke K, Ernzerhof M. Generalized gradient approximation made simple. Phys Rev Lett. 1997;78:1396.

    Article  Google Scholar 

  2. Hamada I. van der Waals density functional made accurate. Phys Rev B. 2014;89:121103.

    Article  Google Scholar 

  3. Tkatchenko A, Scheffler M. Accurate molecular van der Waals interactions from ground-state electron density and free-atom reference data. Phys Rev Lett. 2009;102:073005.

    Article  Google Scholar 

  4. Todorovic M, Gutmann MU, Corander J, Rinke P. arXiv:1708.09274.

    Google Scholar 

  5. Packwood DM, Hitosugi T. Rapid prediction of molecule arrangements on metal surfaces via Bayesian optimization. Appl Phys Express. 2017;10:065502.

    Article  Google Scholar 

  6. Cai J. Atomically precise bottom-up fabrication of graphene nanoribbons. Nature. 2010;466:470.

    Article  Google Scholar 

  7. Han P, et al. Bottom-up graphene-nanoribbon fabrication reveals chiral edges and enantioselectivity. ACS Nano. 2014;8:9181.

    Article  Google Scholar 

  8. Han P, et al. Self-assembly strategy for fabricating connected graphene nanoribbons. ACS Nano. 2015;9:12035.

    Article  Google Scholar 

  9. Ruffieux P, et al. On-surface synthesis of graphene nanoribbons with zigzag edge topology. Nature. 2016;531:489.

    Article  Google Scholar 

  10. Packwood DM, Han P, Hitosugi T. Chemical and entropic control on the molecular self-assembly process. Nat Commun. 2017;8:14463.

    Article  Google Scholar 

  11. Akima H, Gabhardt A. Akima: interpolation of irregularly and regularly spaced data. R package version 0.5–12. 2015. http://CRAN.R-project.org/package=akima.

  12. R Core Team. R: a language and environment for statistical computing. R Foundation for Statistical Computing. 2017. https://www.R-project.org/.

  13. Rupp M, et al. Fast and accurate modeling of molecular atomization energies with machine learning. Phys Rev Lett. 2012;108:058301.

    Article  Google Scholar 

  14. Hansen K, et al. Assessment and validation of machine learning methods for predicting molecular atomization energies. J Chem Theory Comput. 2013;9:3404.

    Article  Google Scholar 

  15. Bagus PS, Germann K, Woll C. The interaction of C6H6 and C6H12 with noble metal surfaces: electronic level alignment and the origin of the interface dipole. J Chem Phys. 2005;123:183109.

    Article  Google Scholar 

  16. Witte G, et al. Vacuum level alignment at organic/metal junctions: “Cushion” effect and the interface dipole. Appl Phys Lett. 2015;87:263502.

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Daniel Packwood .

Rights and permissions

Reprints and permissions

Copyright information

© 2017 The Author(s)

About this chapter

Cite this chapter

Packwood, D. (2017). Bayesian Optimization of Molecules Adsorbed to Metal Surfaces. In: Bayesian Optimization for Materials Science. SpringerBriefs in the Mathematics of Materials, vol 3. Springer, Singapore. https://doi.org/10.1007/978-981-10-6781-5_3

Download citation

Publish with us

Policies and ethics