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Ong A, Wong ZC, Chin KLO, Loh WW, Chua MH, Ang SJ, Lim JYC. Enhancing the photocatalytic upcycling of polystyrene to benzoic acid: a combined computational-experimental approach for acridinium catalyst design. Chem Sci 2024; 15:1061-1067. [PMID: 38239702 PMCID: PMC10793207 DOI: 10.1039/d3sc06388g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Accepted: 12/07/2023] [Indexed: 01/22/2024] Open
Abstract
Converting polystyrene into value-added oxygenated aromatic compounds is an attractive end-of-life upcycling strategy. However, identification of appropriate catalysts often involves laborious and time-consuming empirical screening. Herein, after demonstrating the feasibility of using acridinium salts for upcycling polystyrene into benzoic acid by photoredox catalysis for the first time, we applied low-cost descriptor-based combinatorial in silico screening to predict the photocatalytic performance of a family of potential candidates. Through this approach, we identified a non-intuitive fluorinated acridinium catalyst that outperforms other candidates for converting polystyrene to benzoic acid in useful yields at low catalyst loadings (≤5 mol%). In addition, this catalyst also proved effective with real-life polystyrene waste containing dyes and additives. Our study underscores the potential of computer-aided catalyst design for valorizing polymeric waste into essential chemical feedstock for a more sustainable future.
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Affiliation(s)
- Albert Ong
- Institute of Materials Research and Engineering (IMRE), Agency for Science, Technology and Research (A*STAR) 2 Fusionopolis Way, Innovis #08-03 Singapore 138634 Republic of Singapore
| | - Zi Cheng Wong
- Institute of High Performance Computing (IHPC), Agency for Science, Technology and Research (A*STAR) 1 Fusionopolis Way, Connexis, #16-16 Singapore 138632 Republic of Singapore
| | - Kang Le Osmund Chin
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR) 1 Pesek Road, Jurong Island Singapore 627833 Republic of Singapore
| | - Wei Wei Loh
- Institute of Materials Research and Engineering (IMRE), Agency for Science, Technology and Research (A*STAR) 2 Fusionopolis Way, Innovis #08-03 Singapore 138634 Republic of Singapore
| | - Ming Hui Chua
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR) 1 Pesek Road, Jurong Island Singapore 627833 Republic of Singapore
| | - Shi Jun Ang
- Institute of High Performance Computing (IHPC), Agency for Science, Technology and Research (A*STAR) 1 Fusionopolis Way, Connexis, #16-16 Singapore 138632 Republic of Singapore
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR) 1 Pesek Road, Jurong Island Singapore 627833 Republic of Singapore
| | - Jason Y C Lim
- Institute of Materials Research and Engineering (IMRE), Agency for Science, Technology and Research (A*STAR) 2 Fusionopolis Way, Innovis #08-03 Singapore 138634 Republic of Singapore
- Department of Materials Science and Engineering, National University of Singapore (NUS) 9 Engineering Drive 1 Singapore 117576 Republic of Singapore
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Tay DWP, Yeo NZX, Adaikkappan K, Lim YH, Ang SJ. 67 million natural product-like compound database generated via molecular language processing. Sci Data 2023; 10:296. [PMID: 37208372 DOI: 10.1038/s41597-023-02207-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Accepted: 04/21/2023] [Indexed: 05/21/2023] Open
Abstract
Natural products are a rich resource of bioactive compounds for valuable applications across multiple fields such as food, agriculture, and medicine. For natural product discovery, high throughput in silico screening offers a cost-effective alternative to traditional resource-heavy assay-guided exploration of structurally novel chemical space. In this data descriptor, we report a characterized database of 67,064,204 natural product-like molecules generated using a recurrent neural network trained on known natural products, demonstrating a significant 165-fold expansion in library size over the approximately 400,000 known natural products. This study highlights the potential of using deep generative models to explore novel natural product chemical space for high throughput in silico discovery.
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Affiliation(s)
- Dillon W P Tay
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR), 8 Biomedical Grove, #07-01 Neuros Building, Singapore, 138665, Republic of Singapore.
| | - Naythan Z X Yeo
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR), 8 Biomedical Grove, #07-01 Neuros Building, Singapore, 138665, Republic of Singapore
- Hwa Chong Institution, 661 Bukit Timah Road, Singapore, 269734, Republic of Singapore
| | - Krishnan Adaikkappan
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR), 8 Biomedical Grove, #07-01 Neuros Building, Singapore, 138665, Republic of Singapore
- National Junior College, 37 Hillcrest Road, Singapore, 288913, Republic of Singapore
| | - Yee Hwee Lim
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR), 8 Biomedical Grove, #07-01 Neuros Building, Singapore, 138665, Republic of Singapore
- Synthetic Biology Translational Research Program, Yong Loo Lin School of Medicine, National University of Singapore, 10 Medical Drive, Singapore, 117597, Republic of Singapore
| | - Shi Jun Ang
- Institute of Sustainability for Chemicals, Energy and Environment (ISCE2), Agency for Science, Technology and Research (A*STAR), 8 Biomedical Grove, #07-01 Neuros Building, Singapore, 138665, Republic of Singapore.
- Institute of High Performance Computing (IHPC), Agency for Science, Technology and Research (A*STAR), 1 Fusionopolis Way, #16-16 Connexis, Singapore, 138632, Republic of Singapore.
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Jiang Y, Duchamp M, Ang SJ, Yan H, Tan TL, Mirsaidov U. Dynamics of the fcc-to-bcc phase transition in single-crystalline PdCu alloy nanoparticles. Nat Commun 2023; 14:104. [PMID: 36609570 PMCID: PMC9822937 DOI: 10.1038/s41467-022-35325-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Accepted: 11/28/2022] [Indexed: 01/09/2023] Open
Abstract
Two most common crystal structures in metals and metal alloys are body-centered cubic (bcc) and face-centered cubic (fcc) structures. The phase transitions between these structures play an important role in the production of durable and functional metal alloys. Despite their technological significance, the details of such phase transitions are largely unknown because of the challenges associated with probing these processes. Here, we describe the nanoscopic details of an fcc-to-bcc phase transition in PdCu alloy nanoparticles (NPs) using in situ heating transmission electron microscopy. Our observations reveal that the bcc phase always nucleates from the edge of the fcc NP, and then propagates across the NP by forming a distinct few-atoms-wide coherent bcc-fcc interface. Notably, this interface acts as an intermediate precursor phase for the nucleation of a bcc phase. These insights into the fcc-to-bcc phase transition are important for understanding solid - solid phase transitions in general and can help to tailor the functional properties of metals and their alloys.
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Affiliation(s)
- Yingying Jiang
- grid.4280.e0000 0001 2180 6431Department of Physics, National University of Singapore, Singapore, 117551 Singapore ,grid.4280.e0000 0001 2180 6431Centre for BioImaging Sciences, Department of Biological Sciences, National University of Singapore, Singapore, 117557 Singapore
| | - Martial Duchamp
- grid.59025.3b0000 0001 2224 0361School of Materials Science and Engineering, Nanyang Technological University, Singapore, 639798 Singapore
| | - Shi Jun Ang
- grid.185448.40000 0004 0637 0221Institute of High Performance Computing, Agency for Science, Technology and Research, Singapore, 138632 Singapore
| | - Hongwei Yan
- grid.4280.e0000 0001 2180 6431Department of Physics, National University of Singapore, Singapore, 117551 Singapore ,grid.4280.e0000 0001 2180 6431Centre for BioImaging Sciences, Department of Biological Sciences, National University of Singapore, Singapore, 117557 Singapore
| | - Teck Leong Tan
- grid.185448.40000 0004 0637 0221Institute of High Performance Computing, Agency for Science, Technology and Research, Singapore, 138632 Singapore
| | - Utkur Mirsaidov
- grid.4280.e0000 0001 2180 6431Department of Physics, National University of Singapore, Singapore, 117551 Singapore ,grid.4280.e0000 0001 2180 6431Centre for BioImaging Sciences, Department of Biological Sciences, National University of Singapore, Singapore, 117557 Singapore ,grid.4280.e0000 0001 2180 6431Centre for Advanced 2D Materials and Graphene Research Centre, National University of Singapore, Singapore, 117546 Singapore ,grid.4280.e0000 0001 2180 6431Department of Materials Science and Engineering, National University of Singapore, Singapore, 117575 Singapore
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Chua MH, Chin KLO, Ang SJ, Soo XYD, Png ZM, Zhu Q, Xu J. Aggregation Induced Emission‐active Poly(acrylates) for Electrofluorochromic Detection of Nitroaromatic Compounds. CHEMPHOTOCHEM 2022. [DOI: 10.1002/cptc.202200168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Ming Hui Chua
- Institute of Sustainability for Chemicals Energy and Environment Sustainable Polymers 1 Pesek Road, Jurong Island 627833 Singapore SINGAPORE
| | - Kang Le Osmund Chin
- Institute of Sustainability for Chemicals Energy and Environment Sustainable Polymers 1 Pesek Road, Jurong Island 627833 SINGAPORE
| | - Shi Jun Ang
- Institute of High Performance Computing Materials Science and Chemistry 1 Fusionopolis Way, Connexis, #16-16 138632 SINGAPORE
| | - Xiang Yun Debbie Soo
- Institute of Materials Research and Engineering Advanced Characterization & Instrumentation 2 Fusionopolis Way, Innovis, #08-03 138634 SINGAPORE
| | - Zhuang Mao Png
- Institute of Sustainability for Chemicals Energy and Environment Sustainable Polymers 1 Pesek Road, Jurong Island 627833 SINGAPORE
| | - Qiang Zhu
- Institute of Materials Research and Engineering Advanced Characterization & Instrumentation 2 Fusionopolis Way, Innovis, #08-03 138634 SINGAPORE
| | - Jianwei Xu
- Institute of Sustainability for Chemicals Energy and Environment Sustainable Polymers 1 Pesek Road, Jurong Island 627833 SINGAPORE
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Vo TP, Chua MH, Ang SJ, Chin KLO, Soo XYD, Png ZM, Tam TLD, Zhu Q, Procter DJ, Xu J. Pyrrolo[3,4-c]pyridine-1,2-dione: A New Electron Acceptor for Electrochromic Conjugated Polymers. Polym Chem 2022. [DOI: 10.1039/d2py00863g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
A new pyrrolo[3,4-c]pyridine-1,2-dione (PPyD) electron acceptor was synthesized via the Diels Alder reaction between N-alkyl maleimide dienophile and 1,2,4-triazine moieties. PPyD was subsequently used to construct five donor-acceptor type conjugated...
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Ang SJ, Ser CT, Wong MW. Modeling halogen bonding with planewave density functional theory: Accuracy and challenges. J Comput Chem 2019; 40:1829-1835. [DOI: 10.1002/jcc.25835] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2019] [Revised: 02/20/2019] [Accepted: 03/18/2019] [Indexed: 12/12/2022]
Affiliation(s)
- Shi Jun Ang
- NUS Graduate School for Integrative Sciences and Engineering University Hall, Tan Chin Tuan Wing, #04‐02, 21 Lower Kent Ridge, Singapore 119077 Singapore
| | - Cher Tian Ser
- Department of ChemistryNational University of Singapore 3 Science Drive 3, Singapore 117543 Singapore
| | - Ming Wah Wong
- NUS Graduate School for Integrative Sciences and Engineering University Hall, Tan Chin Tuan Wing, #04‐02, 21 Lower Kent Ridge, Singapore 119077 Singapore
- Department of ChemistryNational University of Singapore 3 Science Drive 3, Singapore 117543 Singapore
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Ang SJ, Mak AM, Wong MW. Nature of halogen bonding involving π-systems, nitroxide radicals and carbenes: a highlight of the importance of charge transfer. Phys Chem Chem Phys 2018; 20:26463-26478. [PMID: 30306972 DOI: 10.1039/c8cp04075c] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The recently developed adiabatic absolutely localized molecular orbital energy decomposition analysis (ALMO-EDA) has proven to be useful in determining the effects of different energy components on the geometries of complexes bound by intermolecular interactions. The authors have applied it to systems such as the water dimer, water-ion complexes, metallocenes and lone-pair type halogen-bonded (XB) dimers. In this study, we have extended the second-generation ALMO-EDA method to 40 different XB complexes by benchmarking against its classical counterpart and symmetry-adapted perturbation theory (SAPT). In addition, we have examined the nature of halogen bonding involving less studied XB acceptors, namely π-systems, radicals and carbenes, using the adiabatic ALMO-EDA analyses, particularly to shed light on how each energy component affects the geometries of the XB complexes. Our results show that the second-generation ALMO-EDA predicts a higher electrostatic energy contribution in all XB complexes compared to SAPT and classical ALMO-EDA schemes. On the other hand, when comparing across different XB acceptors, all three partition schemes produced the same qualitative finding. The adiabatic ALMO-EDA analyses indicate that while the inclusion of a charge transfer contribution is important in achieving accurate XB bond lengths and interaction energies, as well as recovering the binding site specificity of XB involving benzene and naphthalene acceptors, it is sufficient to obtain the linearity of the XB complexes in the frozen approximation.
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Affiliation(s)
- Shi Jun Ang
- NUS Graduate School for Integrative Sciences and Engineering, Centre for Life Sciences, #05-01, 28 Medical Drive, Singapore 117456, Singapore. and Institute of High Performance Computing, 1 Fusionopolis Way, #16-16 Connexis North, Singapore 138632, Singapore
| | - Adrian M Mak
- Institute of High Performance Computing, 1 Fusionopolis Way, #16-16 Connexis North, Singapore 138632, Singapore
| | - Ming Wah Wong
- NUS Graduate School for Integrative Sciences and Engineering, Centre for Life Sciences, #05-01, 28 Medical Drive, Singapore 117456, Singapore. and Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543
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Abstract
Based on Cambridge structural database survey and quantum chemical studies, aromatic halogen bond (XB) acceptors are found to have unique pattern of XB binding sites and rim specificity.
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Affiliation(s)
- Shi Jun Ang
- NUS Graduate School for Integrative Sciences and Engineering
- Centre for Life Sciences
- Singapore 117456
- Singapore
- Institute of High Performance Computing
| | - Adrian M. Mak
- Institute of High Performance Computing
- Singapore 138632
- Singapore
| | - Michael B. Sullivan
- Institute of High Performance Computing
- Singapore 138632
- Singapore
- Department of Chemistry
- National University of Singapore
| | - Ming Wah Wong
- NUS Graduate School for Integrative Sciences and Engineering
- Centre for Life Sciences
- Singapore 117456
- Singapore
- Department of Chemistry
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Ang SJ, Stump RJW, Lovicu FJ, McAvoy JW. Spatial and temporal expression of Wnt and Dickkopf genes during murine lens development. Gene Expr Patterns 2004; 4:289-95. [PMID: 15053977 DOI: 10.1016/j.modgep.2003.11.002] [Citation(s) in RCA: 52] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2003] [Revised: 10/30/2003] [Accepted: 11/07/2003] [Indexed: 10/26/2022]
Abstract
Recent studies indicate a role for Wnt signalling in regulating lens cell differentiation (Stump et al., 2003). To further our understanding of this, we investigated the expression patterns of Wnts and Wnt signalling regulators, the Dickkopfs (Dkks), during murine lens development. In situ hybridisation showed that Wnt5a, Wnt5b, Wnt7a, Wnt7b, Wnt8a and Wnt8b genes are expressed throughout the early lens primordia. At embryonic day 14.5 (E14.5), Wnt5a, Wnt5b, Wnt7a, Wnt8a and Wnt8b are reduced in the primary fibres, whereas Wnt7b remains strongly expressed. This trend persists up to E15.5. At later embryonic stages, Wnt expression is predominantly localised to the epithelium and elongating cells at the lens equator. As fibre differentiation progresses, Wnt expression becomes undetectable in the cells of the lens cortex. The one exception is Wnt7b, which continues to be weakly expressed in cortical fibres. This pattern of expression continues through to early postnatal stages. However, by postnatal day 21 (P21), expression of all Wnts is distinctly weaker in the central lens epithelium compared with the equatorial region. This is most notable for Wnt5a, which is barely detectable in the central lens epithelium at P21. Dkk1, Dkk2 and Dkk3 have similar patterns of expression to each other and to the majority of the Wnts during lens development. This study shows that multiple Wnt and Dkk genes are expressed during lens development. Expression is predominantly in the epithelial compartment but is also associated, particularly in the case of Wnt7b, with early events in fibre differentiation.
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Affiliation(s)
- S J Ang
- Save Sight Institute, The University of Sydney, GPO Box 4337, Sydney Eye Hospital, Sydney, NSW 2006, Australia
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