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Green C, Ahmed S, Marathe S, Perera L, Leonardi A, Gmyrek K, Dini D, Le Houx J. Three-dimensional, multimodal synchrotron data for machine learning applications. Sci Data 2025; 12:329. [PMID: 39994193 PMCID: PMC11850828 DOI: 10.1038/s41597-025-04605-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2024] [Accepted: 02/07/2025] [Indexed: 02/26/2025] Open
Abstract
Machine learning techniques are being increasingly applied in medical and physical sciences across a variety of imaging modalities; however, an important issue when developing these tools is the availability of good quality training data. Here we present a unique, multimodal synchrotron dataset of a bespoke zinc-doped Zeolite 13X sample that can be used to develop advanced deep learning and data fusion pipelines. Multi-resolution micro X-ray computed tomography was performed on a zinc-doped Zeolite 13X fragment to characterise its pores and features before spatially resolved X-ray diffraction computed tomography was carried out to characterise the topographical distribution of sodium and zinc phases. Zinc absorption was controlled to create a simple, spatially isolated, two-phase material. Both raw and processed data are available as a series of Zenodo entries. Altogether we present a spatially resolved, three-dimensional, multimodal, multi-resolution dataset that can be used to develop machine learning techniques. Such techniques include the development of super-resolution, multimodal data fusion, and 3D reconstruction algorithms.
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Affiliation(s)
- Calum Green
- Imperial College London, Department of Mechanical Engineering, London, SW7 2AZ, UK.
- Diamond Light Source, Rutherford Appleton Laboratory, Didcot, OX11 0QX, UK.
| | - Sharif Ahmed
- Diamond Light Source, Rutherford Appleton Laboratory, Didcot, OX11 0QX, UK
| | | | - Liam Perera
- Diamond Light Source, Rutherford Appleton Laboratory, Didcot, OX11 0QX, UK
| | - Alberto Leonardi
- Diamond Light Source, Rutherford Appleton Laboratory, Didcot, OX11 0QX, UK
| | - Killian Gmyrek
- Imperial College London, Department of Mechanical Engineering, London, SW7 2AZ, UK
| | - Daniele Dini
- Imperial College London, Department of Mechanical Engineering, London, SW7 2AZ, UK
| | - James Le Houx
- ISIS Neutron & Muon Source, Rutherford Appleton Laboratory, Didcot, OX11 0QX, UK
- The Faraday Institution, Harwell Science and Innovation Campus, Didcot, OX11 0RA, UK
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2
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Kathyola TA, Keylock SJ, Ignatyev K, Filik J, Drnec J, Webb PB, Kroner AB, Diaz-Moreno S. A multi-modal high pressure and high temperature reaction cell for combined x-ray spectroscopy, scattering, and imaging. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2024; 95:105122. [PMID: 39441062 DOI: 10.1063/5.0230527] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2024] [Accepted: 10/01/2024] [Indexed: 10/25/2024]
Abstract
A free-standing and compact reaction cell for combined in situ/operando x-ray spectroscopy, scattering, and imaging measurements at high pressures and high temperatures is described. The cell permits measurements under realistic operating conditions (up to 50 bar and 1000 °C), under static and flow conditions (up to 100 ml/min), over a wide range of hard x-ray energies, variable detection modes (transmission, fluorescence, and scattering), and at all angles of rotation. An operando XAS, x-ray fluorescence, x-ray computed tomography, and x-ray diffraction computed tomography case study on the reduction of a heterogeneous catalyst is presented to illustrate the performance of the reaction cell.
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Affiliation(s)
| | | | | | - Jacob Filik
- Diamond Light Source, Didcot, Oxfordshire OX11 0DE, United Kingdom
| | - Jakub Drnec
- The European Synchrotron Radiation Facility, 71 Av. des Martyrs, 38000 Grenoble, France
| | - Paul B Webb
- School of Chemistry, University of St Andrews, St Andrews KY16 9ST, United Kingdom
| | - Anna B Kroner
- Diamond Light Source, Didcot, Oxfordshire OX11 0DE, United Kingdom
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Reed JLA, James A, Carey T, Fitzgerald N, Kellet S, Nearchou A, Farrelly AL, Fell HAH, Allan PK, Hriljac JA. Engineered species-selective ion-exchange in tuneable dual-phase zeolite composites. Chem Sci 2024; 15:13699-13711. [PMID: 39211493 PMCID: PMC11352454 DOI: 10.1039/d4sc02664k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Accepted: 05/05/2024] [Indexed: 09/04/2024] Open
Abstract
Controllable sorption selectivity in zeolites is crucial for their application in catalysis, gas separation and ion-exchange. Whilst existing approaches to achieving sorption selectivity with natural zeolites typically rely on screening for specific geological deposits, here we develop partial interzeolite transformation as a straightforward and highly tuneable method to achieve sorption selectivity via forming dual-phase composites with simultaneous control of both phase-ratio and morphology. The dual-cation (strontium and caesium) exchange properties of a series of granular mordenite/zeolite P composites formed from a parent natural mordenite material are demonstrated in complex, industrially relevant multi-ion environments pertinent to nuclear waste management. The relative uptake of caesium and strontium is controlled via the extent of transformation: composites exhibit significantly increased ion-exchange affinity for strontium compared to both the parent mordenite and physical mixtures of mordenite/zeolite P phases with similar phase ratios. The composite with a 40 : 60 mordenite : zeolite P ratio composite achieves higher uptake rates than the natural clinoptilolite material currently used to decontaminate nuclear waste streams at the Sellafield site, UK. In situ X-ray image-guided diffraction experiments during caesium exchange demonstrate that the mordenite core retains rapid caesium uptake likely responsible for the unique ion-exchange chemistry achievable through the partial inter-zeolite transformation. These results offer a straightforward and controllable route to optimised zeolite functionality and a strategy to engineer composites from low-grade natural sources at low cost and with formulation advantages for industrial deployment.
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Affiliation(s)
- James L A Reed
- School of Chemistry, University of Birmingham Edgbaston Birmingham B15 2TT UK
| | - Andrew James
- Diamond Light Source Ltd, Harwell Science and Innovation Campus Didcot Oxfordshire OX11 0DE UK
| | - Thomas Carey
- National Nuclear Laboratory, Springfields Salwick Preston PR4 0XJ UK
| | - Neelam Fitzgerald
- National Nuclear Laboratory, Springfields Salwick Preston PR4 0XJ UK
| | - Simon Kellet
- Sellafield Ltd, Sellafield Seascale Cumbria CA20 1PG UK
| | - Antony Nearchou
- School of Chemistry, University of Birmingham Edgbaston Birmingham B15 2TT UK
| | - Adele L Farrelly
- School of Chemistry, University of Birmingham Edgbaston Birmingham B15 2TT UK
| | - Harrison A H Fell
- School of Chemistry, University of Birmingham Edgbaston Birmingham B15 2TT UK
| | - Phoebe K Allan
- School of Chemistry, University of Birmingham Edgbaston Birmingham B15 2TT UK
| | - Joseph A Hriljac
- School of Chemistry, University of Birmingham Edgbaston Birmingham B15 2TT UK
- Diamond Light Source Ltd, Harwell Science and Innovation Campus Didcot Oxfordshire OX11 0DE UK
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Le Houx J, Ruiz S, McKay Fletcher D, Ahmed S, Roose T. Statistical Effective Diffusivity Estimation in Porous Media Using an Integrated On-site Imaging Workflow for Synchrotron Users. Transp Porous Media 2023; 150:71-88. [PMID: 37663951 PMCID: PMC10468943 DOI: 10.1007/s11242-023-01993-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 07/03/2023] [Indexed: 09/05/2023]
Abstract
Transport in porous media plays an essential role for many physical, engineering, biological and environmental processes. Novel synchrotron imaging techniques and image-based models have enabled more robust quantification of geometric structures that influence transport through the pore space. However, image-based modelling is computationally expensive, and end users often require, while conducting imaging campaign, fast and agile bulk-scale effective parameter estimates that account for the pore-scale details. In this manuscript we enhance a pre-existing image-based model solver known as OpenImpala to estimate bulk-scale effective transport parameters. In particular, the boundary conditions and equations in OpenImpala were modified in order to estimate the effective diffusivity in an imaged system/geometry via a formal multi-scale homogenisation expansion. Estimates of effective pore space diffusivity were generated for a range of elementary volume sizes to estimate when the effective diffusivity values begin to converge to a single value. Results from OpenImpala were validated against a commercial finite element method package COMSOL Multiphysics (abbreviated as COMSOL). Results showed that the effective diffusivity values determined with OpenImpala were similar to those estimated by COMSOL. Tests on larger domains comparing a full image-based model to a homogenised (geometrically uniform) domain that used the effective diffusivity parameters showed differences below 2 % error, thus verifying the accuracy of the effective diffusivity estimates. Finally, we compared OpenImpala's parallel computing speeds to COMSOL. OpenImpala consistently ran simulations within fractions of minutes, which was two orders of magnitude faster than COMSOL providing identical supercomputing specifications. In conclusion, we demonstrated OpenImpala's utility as part of an on-site tomography processing pipeline allowing for fast and agile assessment of porous media processes and to guide imaging campaigns while they are happening at synchrotron beamlines. Supplementary Information The online version contains supplementary material available at 10.1007/s11242-023-01993-7.
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Affiliation(s)
- James Le Houx
- Department, Diamond Light Source, Harwell Science and Innovation Campus, Fermi Ave, Didcot, Oxfordshire OX11 0DE UK
| | - Siul Ruiz
- Faculty of Engineering and Physical Sciences, University of Southampton, University Road, Southampton, Hampshire SO17 1BJ UK
| | - Daniel McKay Fletcher
- Faculty of Engineering and Physical Sciences, University of Southampton, University Road, Southampton, Hampshire SO17 1BJ UK
- Rural Economy, Environment and Society, Scotland’s Rural College, West Mains Road, Edinburgh, EH9 3JG UK
| | - Sharif Ahmed
- Department, Diamond Light Source, Harwell Science and Innovation Campus, Fermi Ave, Didcot, Oxfordshire OX11 0DE UK
| | - Tiina Roose
- Faculty of Engineering and Physical Sciences, University of Southampton, University Road, Southampton, Hampshire SO17 1BJ UK
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Besnard C, Marie A, Sasidharan S, Harper RA, Shelton RM, Landini G, Korsunsky AM. Synchrotron X-ray Studies of the Structural and Functional Hierarchies in Mineralised Human Dental Enamel: A State-of-the-Art Review. Dent J (Basel) 2023; 11:98. [PMID: 37185477 PMCID: PMC10137518 DOI: 10.3390/dj11040098] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2023] [Revised: 03/19/2023] [Accepted: 03/28/2023] [Indexed: 05/17/2023] Open
Abstract
Hard dental tissues possess a complex hierarchical structure that is particularly evident in enamel, the most mineralised substance in the human body. Its complex and interlinked organisation at the Ångstrom (crystal lattice), nano-, micro-, and macro-scales is the result of evolutionary optimisation for mechanical and functional performance: hardness and stiffness, fracture toughness, thermal, and chemical resistance. Understanding the physical-chemical-structural relationships at each scale requires the application of appropriately sensitive and resolving probes. Synchrotron X-ray techniques offer the possibility to progress significantly beyond the capabilities of conventional laboratory instruments, i.e., X-ray diffractometers, and electron and atomic force microscopes. The last few decades have witnessed the accumulation of results obtained from X-ray scattering (diffraction), spectroscopy (including polarisation analysis), and imaging (including ptychography and tomography). The current article presents a multi-disciplinary review of nearly 40 years of discoveries and advancements, primarily pertaining to the study of enamel and its demineralisation (caries), but also linked to the investigations of other mineralised tissues such as dentine, bone, etc. The modelling approaches informed by these observations are also overviewed. The strategic aim of the present review was to identify and evaluate prospective avenues for analysing dental tissues and developing treatments and prophylaxis for improved dental health.
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Affiliation(s)
- Cyril Besnard
- MBLEM, Department of Engineering Science, University of Oxford, Parks Road, Oxford OX1 3PJ, Oxfordshire, UK
| | - Ali Marie
- MBLEM, Department of Engineering Science, University of Oxford, Parks Road, Oxford OX1 3PJ, Oxfordshire, UK
| | - Sisini Sasidharan
- MBLEM, Department of Engineering Science, University of Oxford, Parks Road, Oxford OX1 3PJ, Oxfordshire, UK
| | - Robert A. Harper
- School of Dentistry, University of Birmingham, 5 Mill Pool Way, Edgbaston, Birmingham B5 7EG, West Midlands, UK
| | - Richard M. Shelton
- School of Dentistry, University of Birmingham, 5 Mill Pool Way, Edgbaston, Birmingham B5 7EG, West Midlands, UK
| | - Gabriel Landini
- School of Dentistry, University of Birmingham, 5 Mill Pool Way, Edgbaston, Birmingham B5 7EG, West Midlands, UK
| | - Alexander M. Korsunsky
- MBLEM, Department of Engineering Science, University of Oxford, Parks Road, Oxford OX1 3PJ, Oxfordshire, UK
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Chernov VA, Bataev IA, Rakshun YV, Khomyakov YV, Gorbachev MV, Trebushinin AE, Chkhalo NI, Krasnorutskiy DA, Naumkin VS, Sklyarov AN, Mezentsev NA, Korsunsky AM, Dolbnya IP. A concept of "materials" diffraction and imaging beamline for SKIF: Siberian circular photon source. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2023; 94:013305. [PMID: 36725606 DOI: 10.1063/5.0103481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Accepted: 12/09/2022] [Indexed: 06/18/2023]
Abstract
Over the next decade, the extremely brilliant fourth generation synchrotron radiation sources are set to become a key driving force in materials characterization and technology development. In this study, we present a conceptual design of a versatile "Materia" diffraction and imaging beamline for a low-emittance synchrotron radiation facility. The beamline was optimized for operation with three main principal delivery regimes: parallel collimated beam ∼1 mm beam size, micro-focus regime with ∼10 μm beam spot size on the sample, and nano-focus regime with <100 nm focus. All regimes will operate in the photon energy range of 10-30 keV with the key feature of the beamline being fast switching between them, as well as between the various realizations of diffraction and imaging operation modes while maintaining the target beam position at the sample, and with both spectrally narrow and spectrally broad beams up to the energy band ΔE/E of 5 × 10-2. The manuscript presents the details of the principal characteristics selected for the insertion device and beamline optics, the materials characterization techniques, including the simulations of thermal load impact on the critical beamline optics components. Significant efforts were made to design the monochromators to mitigate the very high beam power load produced by a superconducting undulator source. The manuscript will be of interest to research groups involved in the design of new synchrotron beamlines.
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Affiliation(s)
- Vladimir A Chernov
- Budker Institute of Nuclear Physics, 11 Acad. Lavrentyev Av., Novosibirsk 630090, Russian Federation
| | - Ivan A Bataev
- Novosibirsk State Technical University, 20 Karl Marks Av., Novosibirsk 630073, Russian Federation
| | - Yakov V Rakshun
- Budker Institute of Nuclear Physics, 11 Acad. Lavrentyev Av., Novosibirsk 630090, Russian Federation
| | - Yuri V Khomyakov
- Budker Institute of Nuclear Physics, 11 Acad. Lavrentyev Av., Novosibirsk 630090, Russian Federation
| | - Maksim V Gorbachev
- Novosibirsk State Technical University, 20 Karl Marks Av., Novosibirsk 630073, Russian Federation
| | - Andrei E Trebushinin
- Budker Institute of Nuclear Physics, 11 Acad. Lavrentyev Av., Novosibirsk 630090, Russian Federation
| | - Nikolay I Chkhalo
- Institute for Physics of Microstructures, Nizhny Novgorod 607680, Russian Federation
| | - Dmitry A Krasnorutskiy
- Novosibirsk State Technical University, 20 Karl Marks Av., Novosibirsk 630073, Russian Federation
| | - Viktor S Naumkin
- Novosibirsk State Technical University, 20 Karl Marks Av., Novosibirsk 630073, Russian Federation
| | - Artem N Sklyarov
- Novosibirsk State University, 1 Pirogova Str., Novosibirsk 630090, Russian Federation
| | - Nikolay A Mezentsev
- Budker Institute of Nuclear Physics, 11 Acad. Lavrentyev Av., Novosibirsk 630090, Russian Federation
| | - Alexander M Korsunsky
- Department of Engineering Science, University of Oxford, Oxford OX1 3PJ, United Kingdom
| | - Igor P Dolbnya
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, United Kingdom
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Reinhard C, Drakopoulos M, Charlesworth CM, James A, Patel H, Tutthill P, Crivelli D, Deyhle H, Ahmed SI. Flexible positioning of a large area detector using an industrial robot. JOURNAL OF SYNCHROTRON RADIATION 2022; 29:1004-1013. [PMID: 35787567 PMCID: PMC9255586 DOI: 10.1107/s1600577522006300] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/14/2021] [Accepted: 06/15/2022] [Indexed: 06/15/2023]
Abstract
The DIAD beamline for Dual Imaging and Diffraction at Diamond Light Source has opted to use an industrial robot to position its Dectris Pilatus 2M CdTe diffraction detector. This setup was chosen to enable flexible positioning of the detector in a quarter-sphere around the sample position whilst reliably holding the large weight of 139 kg of detector, detector mount and cabling in a stable position. Metrology measurements showed that the detector can be positioned with a linear repeatability of <19.7 µm and a rotational repeatability of <16.3 µrad. The detector position stays stable for a 12 h period with <10.1 µm of movement for linear displacement and <3.8 µrad for rotational displacement. X-ray diffraction from calibration samples confirmed that the robot is sufficiently stable to resolve lattice d-spacings within the instrumental broadening given by detector position and beam divergence.
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Affiliation(s)
- Christina Reinhard
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom
| | | | | | - Andrew James
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom
| | - Hiten Patel
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom
| | - Paul Tutthill
- YASKAWA, Walworth Road, Newton Aycliffe DL5 6XF, United Kingdom
| | - Davide Crivelli
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom
| | - Hans Deyhle
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom
| | - Sharif I. Ahmed
- Diamond Light Source, Harwell Science and Innovation Campus, Didcot OX11 0DE, United Kingdom
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Feng S, Liotti E, Grant PS. X-ray Imaging of Alloy Solidification: Crystal Formation, Growth, Instability and Defects. MATERIALS 2022; 15:ma15041319. [PMID: 35207856 PMCID: PMC8878453 DOI: 10.3390/ma15041319] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/27/2021] [Revised: 01/28/2022] [Accepted: 01/31/2022] [Indexed: 02/01/2023]
Abstract
Synchrotron and laboratory-based X-ray imaging techniques have been increasingly used for in situ investigations of alloy solidification and other metal processes. Several reviews have been published in recent years that have focused on the development of in situ X-ray imaging techniques for metal solidification studies. Instead, this work provides a comprehensive review of knowledge provided by in situ X-ray imaging for improved understanding of solidification theories and emerging metal processing technologies. We first review insights related to crystal nucleation and growth mechanisms gained by in situ X-ray imaging, including solute suppressed nucleation theory of α-Al and intermetallic compound crystals, dendritic growth of α-Al and the twin plane re-entrant growth mechanism of faceted Fe-rich intermetallics. Second, we discuss the contribution of in situ X-ray studies in understanding microstructural instability, including dendrite fragmentation induced by solute-driven, dendrite root re-melting, instability of a planar solid/liquid interface, the cellular-to-dendritic transition and the columnar-to-equiaxed transition. Third, we review investigations of defect formation mechanisms during near-equilibrium solidification, including porosity and hot tear formation, and the associated liquid metal flow. Then, we discuss how X-ray imaging is being applied to the understanding and development of emerging metal processes that operate further from equilibrium, such as additive manufacturing. Finally, the outlook for future research opportunities and challenges is presented.
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