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Hyttinen N, Wolf M, Rissanen MP, Ehn M, Peräkylä O, Kurtén T, Prisle NL. Gas-to-Particle Partitioning of Cyclohexene- and α-Pinene-Derived Highly Oxygenated Dimers Evaluated Using COSMO therm. J Phys Chem A 2021; 125:3726-3738. [PMID: 33885310 PMCID: PMC8154597 DOI: 10.1021/acs.jpca.0c11328] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
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Oxidized
organic compounds are expected to contribute to secondary
organic aerosol (SOA) if they have sufficiently low volatilities.
We estimated saturation vapor pressures and activity coefficients
(at infinite dilution in water and a model water-insoluble organic
phase) of cyclohexene- and α-pinene-derived accretion products,
“dimers”, using the COSMOtherm19 program.
We found that these two property estimates correlate with the number
of hydrogen bond-donating functional groups and oxygen atoms in the
compound. In contrast, when the number of H-bond donors is fixed,
no clear differences are seen either between functional group types
(e.g., OH or OOH as H-bond donors) or the formation mechanisms (e.g.,
gas-phase radical recombination vs liquid-phase closed-shell esterification).
For the cyclohexene-derived dimers studied here, COSMOtherm19 predicts lower vapor pressures than the SIMPOL.1 group-contribution
method in contrast to previous COSMOtherm estimates
using older parameterizations and nonsystematic conformer sampling.
The studied dimers can be classified as low, extremely low, or ultra-low-volatility
organic compounds based on their estimated saturation mass concentrations.
In the presence of aqueous and organic aerosol particles, all of the
studied dimers are likely to partition into the particle phase and
thereby contribute to SOA formation.
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Affiliation(s)
- Noora Hyttinen
- Nano and Molecular Systems Research Unit, University of Oulu, 90014 Oulu, Finland.,Department of Applied Physics, University of Eastern Finland, 70211 Kuopio, Finland
| | - Matthieu Wolf
- Department of Chemistry and Institute for Atmospheric and Earth System Research (INAR), University of Helsinki, 00014 Helsinki, Finland
| | - Matti P Rissanen
- Aerosol Physics Laboratory, Physics Unit, Tampere University, 33720 Tampere, Finland
| | - Mikael Ehn
- Institute for Atmospheric and Earth System Research (INAR)/Physics, University of Helsinki, 00014 Helsinki, Finland
| | - Otso Peräkylä
- Institute for Atmospheric and Earth System Research (INAR)/Physics, University of Helsinki, 00014 Helsinki, Finland
| | - Theo Kurtén
- Department of Chemistry and Institute for Atmospheric and Earth System Research (INAR), University of Helsinki, 00014 Helsinki, Finland
| | - Nønne L Prisle
- Nano and Molecular Systems Research Unit, University of Oulu, 90014 Oulu, Finland.,Center for Atmospheric Research, University of Oulu, 90014 Oulu, Finland
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Amar Y, Schweidtmann AM, Deutsch P, Cao L, Lapkin A. Machine learning and molecular descriptors enable rational solvent selection in asymmetric catalysis. Chem Sci 2019; 10:6697-6706. [PMID: 31367324 PMCID: PMC6625492 DOI: 10.1039/c9sc01844a] [Citation(s) in RCA: 47] [Impact Index Per Article: 9.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2019] [Accepted: 05/28/2019] [Indexed: 12/19/2022] Open
Abstract
Rational solvent selection remains a significant challenge in process development. Here we describe a hybrid mechanistic-machine learning approach, geared towards automated process development workflow. A library of 459 solvents was used, for which 12 conventional molecular descriptors, two reaction-specific descriptors, and additional descriptors based on screening charge density, were calculated. Gaussian process surrogate models were trained on experimental data from a Rh(CO)2(acac)/Josiphos catalysed asymmetric hydrogenation of a chiral α-β unsaturated γ-lactam. With two simultaneous objectives - high conversion and high diastereomeric excess - the multi-objective algorithm, trained on the initial dataset of 25 solvents, has identified solvents leading to better reaction outcomes. In addition to being a powerful design of experiments (DoE) methodology, the resulting Gaussian process surrogate model for conversion is, in statistical terms, predictive, with a cross-validation correlation coefficient of 0.84. After identifying promising solvents, the composition of solvent mixtures and optimal reaction temperature were found using a black-box Bayesian optimisation. We then demonstrated the application of a new genetic programming approach to select an appropriate machine learning model for a specific physical system, which should allow the transition of the overall process development workflow into the future robotic laboratories.
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Affiliation(s)
- Yehia Amar
- Department of Chemical Engineering and Biotechnology , University of Cambridge , Philippa Fawcett Drive , Cambridge , CB3 0AS , UK .
| | - Artur M Schweidtmann
- Aachener Verfahrenstechnik - Process Systems Engineering , RWTH Aachen University , Aachen , Germany
| | - Paul Deutsch
- UCB Pharma S.A. Allée de la Recherche , 60 1070 , Brussels , Belgium
| | - Liwei Cao
- Department of Chemical Engineering and Biotechnology , University of Cambridge , Philippa Fawcett Drive , Cambridge , CB3 0AS , UK .
- Cambridge Centre for Advanced Research and Education in Singapore Ltd. , 1 Create Way, CREATE Tower #05-05 , 138602 , Singapore
| | - Alexei Lapkin
- Department of Chemical Engineering and Biotechnology , University of Cambridge , Philippa Fawcett Drive , Cambridge , CB3 0AS , UK .
- Cambridge Centre for Advanced Research and Education in Singapore Ltd. , 1 Create Way, CREATE Tower #05-05 , 138602 , Singapore
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Wania F, Awonaike B, Goss KU. Comment on "Measured Saturation Vapor Pressures of Phenolic and Nitro-Aromatic Compounds". ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:7742-7743. [PMID: 28613854 DOI: 10.1021/acs.est.7b02079] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Affiliation(s)
- Frank Wania
- Department of Physical and Environmental Sciences, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario Canada M1C 1A4
| | - Boluwatife Awonaike
- Department of Physical and Environmental Sciences, University of Toronto Scarborough , 1265 Military Trail, Toronto, Ontario Canada M1C 1A4
| | - Kai-Uwe Goss
- Department of Analytical Environmental Chemistry, Centre for Environmental Research UFZ Leipzig-Halle , Permoserstraße 15, Leipzig, D-04318, Germany
- Institute of Chemistry, University of Halle-Wittenberg , Kurt-Mothes-Straße 2, Halle, D-06120, Germany
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Card ML, Gomez-Alvarez V, Lee WH, Lynch DG, Orentas NS, Lee MT, Wong EM, Boethling RS. History of EPI Suite™ and future perspectives on chemical property estimation in US Toxic Substances Control Act new chemical risk assessments. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2017; 19:203-212. [PMID: 28275775 DOI: 10.1039/c7em00064b] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Chemical property estimation is a key component in many industrial, academic, and regulatory activities, including in the risk assessment associated with the approximately 1000 new chemical pre-manufacture notices the United States Environmental Protection Agency (US EPA) receives annually. The US EPA evaluates fate, exposure and toxicity under the 1976 Toxic Substances Control Act (amended by the 2016 Frank R. Lautenberg Chemical Safety for the 21st Century Act), which does not require test data with new chemical applications. Though the submission of data is not required, the US EPA has, over the past 40 years, occasionally received chemical-specific data with pre-manufacture notices. The US EPA has been actively using this and publicly available data to develop and refine predictive computerized models, most of which are housed in EPI Suite™, to estimate chemical properties used in the risk assessment of new chemicals. The US EPA develops and uses models based on (quantitative) structure-activity relationships ([Q]SARs) to estimate critical parameters. As in any evolving field, (Q)SARs have experienced successes, suffered failures, and responded to emerging trends. Correlations of a chemical structure with its properties or biological activity were first demonstrated in the late 19th century and today have been encapsulated in a myriad of quantitative and qualitative SARs. The development and proliferation of the personal computer in the late 20th century gave rise to a quickly increasing number of property estimation models, and continually improved computing power and connectivity among researchers via the internet are enabling the development of increasingly complex models.
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Affiliation(s)
- Marcella L Card
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
| | - Vicente Gomez-Alvarez
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
| | - Wen-Hsiung Lee
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
| | - David G Lynch
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
| | - Nerija S Orentas
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
| | - Mari Titcombe Lee
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
| | - Edmund M Wong
- United States Environmental Protection Agency Office of Pollution Prevention and Toxics, Washington, DC 20004, USA.
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Tratnyek PG, Bylaska EJ, Weber EJ. In silico environmental chemical science: properties and processes from statistical and computational modelling. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2017; 19:188-202. [PMID: 28262894 DOI: 10.1039/c7em00053g] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Quantitative structure-activity relationships (QSARs) have long been used in the environmental sciences. More recently, molecular modeling and chemoinformatic methods have become widespread. These methods have the potential to expand and accelerate advances in environmental chemistry because they complement observational and experimental data with "in silico" results and analysis. The opportunities and challenges that arise at the intersection between statistical and theoretical in silico methods are most apparent in the context of properties that determine the environmental fate and effects of chemical contaminants (degradation rate constants, partition coefficients, toxicities, etc.). The main example of this is the calibration of QSARs using descriptor variable data calculated from molecular modeling, which can make QSARs more useful for predicting property data that are unavailable, but also can make them more powerful tools for diagnosis of fate determining pathways and mechanisms. Emerging opportunities for "in silico environmental chemical science" are to move beyond the calculation of specific chemical properties using statistical models and toward more fully in silico models, prediction of transformation pathways and products, incorporation of environmental factors into model predictions, integration of databases and predictive models into more comprehensive and efficient tools for exposure assessment, and extending the applicability of all the above from chemicals to biologicals and materials.
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Affiliation(s)
- Paul G Tratnyek
- Institute of Environmental Health, Oregon Health & Science University, 3181 SW Sam Jackson Park Road, Portland, OR 97239, USA.
| | - Eric J Bylaska
- William R. Wiley Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, P.O. Box 999, Richland, WA 99352, USA
| | - Eric J Weber
- National Exposure Assessment Laboratory, U.S. Environmental Protection Agency, 960 College Station Road, Athens, GA 30605, USA
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