Literature DB >> 32513725

Predicting optical spectra for optoelectronic polymers using coarse-grained models and recurrent neural networks.

Lena Simine1, Thomas C Allen1, Peter J Rossky2.   

Abstract

Coarse-grained modeling of conjugated polymers has become an increasingly popular route to investigate the physics of organic optoelectronic materials. While ultraviolet (UV)-vis spectroscopy remains one of the key experimental methods for the interrogation of these materials, a rigorous bridge between simulated coarse-grained structures and spectroscopy has not been established. Here, we address this challenge by developing a method that can predict spectra of conjugated polymers directly from coarse-grained representations while avoiding repetitive procedures such as ad hoc back-mapping from coarse-grained to atomistic representations followed by spectral computation using quantum chemistry. Our approach is based on a generative deep-learning model: the long-short-term memory recurrent neural network (LSTM-RNN). The latter is suggested by the apparent similarity between natural languages and the mathematical structure of perturbative expansions of, in our case, excited-state energies perturbed by conformational fluctuations. We also use this model to explore the level of sensitivity of spectra to the coarse-grained representation back-mapping protocol. Our approach presents a tool uniquely suited for improving postsimulation analysis protocols, as well as, potentially, for including spectral data as input in the refinement of coarse-grained potentials.

Entities:  

Keywords:  coarse-grained modeling; conjugated polymers; machine learning; molecular spectroscopy

Year:  2020        PMID: 32513725      PMCID: PMC7322026          DOI: 10.1073/pnas.1918696117

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  12 in total

Review 1.  Coarse-grained (multiscale) simulations in studies of biophysical and chemical systems.

Authors:  Shina C L Kamerlin; Spyridon Vicatos; Anatoly Dryga; Arieh Warshel
Journal:  Annu Rev Phys Chem       Date:  2011       Impact factor: 12.703

2.  Effective force coarse-graining.

Authors:  Yanting Wang; W G Noid; Pu Liu; Gregory A Voth
Journal:  Phys Chem Chem Phys       Date:  2009-02-12       Impact factor: 3.676

3.  Long short-term memory.

Authors:  S Hochreiter; J Schmidhuber
Journal:  Neural Comput       Date:  1997-11-15       Impact factor: 2.026

Review 4.  Coarse-graining methods for computational biology.

Authors:  Marissa G Saunders; Gregory A Voth
Journal:  Annu Rev Biophys       Date:  2013-02-28       Impact factor: 12.981

5.  Neural Network Based Prediction of Conformational Free Energies - A New Route toward Coarse-Grained Simulation Models.

Authors:  Tobias Lemke; Christine Peter
Journal:  J Chem Theory Comput       Date:  2017-11-28       Impact factor: 6.006

6.  Relating Chromophoric and Structural Disorder in Conjugated Polymers.

Authors:  Lena Simine; Peter J Rossky
Journal:  J Phys Chem Lett       Date:  2017-04-06       Impact factor: 6.475

7.  Coarse-grained simulations of the solution-phase self-assembly of poly(3-hexylthiophene) nanostructures.

Authors:  Kyra N Schwarz; Tak W Kee; David M Huang
Journal:  Nanoscale       Date:  2013-01-31       Impact factor: 7.790

8.  Accurate Force Field Development for Modeling Conjugated Polymers.

Authors:  Kateri H DuBay; Michelle Lynn Hall; Thomas F Hughes; Chuanjie Wu; David R Reichman; Richard A Friesner
Journal:  J Chem Theory Comput       Date:  2012-10-10       Impact factor: 6.006

9.  Bulk Heterojunction Morphologies with Atomistic Resolution from Coarse-Grain Solvent Evaporation Simulations.

Authors:  Riccardo Alessandri; Jaakko J Uusitalo; Alex H de Vries; Remco W A Havenith; Siewert J Marrink
Journal:  J Am Chem Soc       Date:  2017-03-07       Impact factor: 15.419

10.  Machine Learning of Coarse-Grained Molecular Dynamics Force Fields.

Authors:  Jiang Wang; Simon Olsson; Christoph Wehmeyer; Adrià Pérez; Nicholas E Charron; Gianni de Fabritiis; Frank Noé; Cecilia Clementi
Journal:  ACS Cent Sci       Date:  2019-04-15       Impact factor: 14.553

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  4 in total

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Journal:  Energy Environ Sci       Date:  2022-05-20       Impact factor: 39.714

2.  UV-adVISor: Attention-Based Recurrent Neural Networks to Predict UV-Vis Spectra.

Authors:  Fabio Urbina; Kushal Batra; Kevin J Luebke; Jason D White; Daniel Matsiev; Lori L Olson; Jeremiah P Malerich; Maggie A Z Hupcey; Peter B Madrid; Sean Ekins
Journal:  Anal Chem       Date:  2021-11-23       Impact factor: 8.008

3.  Integration of Machine Learning and Coarse-Grained Molecular Simulations for Polymer Materials: Physical Understandings and Molecular Design.

Authors:  Danh Nguyen; Lei Tao; Ying Li
Journal:  Front Chem       Date:  2022-01-24       Impact factor: 5.221

4.  Conformational Heterogeneity and Interchain Percolation Revealed in an Amorphous Conjugated Polymer.

Authors:  Robert M Ziolek; Alejandro Santana-Bonilla; Raquel López-Ríos de Castro; Reimer Kühn; Mark Green; Christian D Lorenz
Journal:  ACS Nano       Date:  2022-09-14       Impact factor: 18.027

  4 in total

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