33 results on '"Daniele Ongari"'
Search Results
2. Understanding the diversity of the metal-organic framework ecosystem
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Seyed Mohamad Moosavi, Aditya Nandy, Kevin Maik Jablonka, Daniele Ongari, Jon Paul Janet, Peter G. Boyd, Yongjin Lee, Berend Smit, and Heather J. Kulik
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Science - Abstract
At present there are databases with over 500,000 predicted or synthesized MOF structures, yet a method to establish whether a new material adds new information does not exist. Here the authors propose a machine-learning based approach to quantify the structural and chemical diversity in common MOF databases.
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- 2020
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3. Metal-organic frameworks as kinetic modulators for branched selectivity in hydroformylation
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Gerald Bauer, Daniele Ongari, Davide Tiana, Patrick Gäumann, Thomas Rohrbach, Gerard Pareras, Mohamed Tarik, Berend Smit, and Marco Ranocchiari
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Science - Abstract
The Co-catalysed hydroformylation of olefins produces selectively linear but not branched aldehydes. Here, the authors show that microporous MOFs increase the olefins density in the pores beyond neat conditions allowing high branched selectivity through kinetic modulation when added to a liquid phase hydroformylation mixture.
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- 2020
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4. Building a Consistent and Reproducible Database for Adsorption Evaluation in Covalent–Organic Frameworks
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Daniele Ongari, Aliaksandr V. Yakutovich, Leopold Talirz, and Berend Smit
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Chemistry ,QD1-999 - Published
- 2019
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5. Big-Data Science in Porous Materials: Materials Genomics and Machine Learning.
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Kevin Maik Jablonka, Daniele Ongari, Seyed Mohamad Moosavi, and Berend Smit
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- 2020
6. Tandem Hydroformylation‐Aldol Condensation Reaction Enabled by Zn‐MOF‐74
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Patrick Gäumann, Thomas Rohrbach, Luca Artiglia, Daniele Ongari, Berend Smit, Jeroen A. van Bokhoven, and Marco Ranocchiari
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Organic Chemistry ,General Chemistry ,Catalysis - Published
- 2023
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7. Data-Driven Matching of Experimental Crystal Structures and Gas Adsorption Isotherms of Metal–Organic Frameworks
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Daniele Ongari, Leopold Talirz, Kevin Maik Jablonka, Berend Smit, and Daniel Siderius
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separation ,General Chemical Engineering ,co2 ,m-mof-74 ,General Chemistry ,mobility ,defects ,jcamp-dx ,zif-8 - Abstract
Porous metal-organic frameworks are a class of materials with great promise in gas separation and gas storage applications. Due to the high dimensional space of materials science and engineering, computational screening techniques have long been an important part of the scientific toolbox. However, a broad validation of molecular simulations in these materials is impeded by the lack of a connection between databases of gas adsorption experiments and databases of the atomic crystal structure of corresponding materials. This work aims to connect the gas adsorption isotherms of metal-organic frameworks collected in the NIST/ARPA-E Database of Novel and Emerging Adsorbent Materials to the corresponding crystal structures in the Cambridge Structural Database. With tens of thousands of isotherms and crystal structures reported to date, an automatic approach is needed to establish this link, which we describe in this paper. As a first application and consistency check, we compare the pore volume measured from low-temperature argon or nitrogen isotherms to the geometrical pore volume computed from the crystal structure. Overall, 545 argon or nitrogen isotherms could be matched to a corresponding crystal structure. We find that the pore volume computed via the two complementary methods shows acceptable agreement only in about 35% of these cases. We provide the subset of isotherms measured on these materials as a seed for a future and more complete reference data set for computational studies.
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- 2022
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8. A data-science approach to predict the heat capacity of nanoporous materials
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Seyed Mohamad Moosavi, Balázs Álmos Novotny, Daniele Ongari, Elias Moubarak, Mehrdad Asgari, Özge Kadioglu, Charithea Charalambous, Andres Ortega-Guerrero, Amir H. Farmahini, Lev Sarkisov, Susana Garcia, Frank Noé, and Berend Smit
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Hot Temperature ,Mechanical Engineering ,design ,General Chemistry ,Condensed Matter Physics ,chemistry ,Carbon ,Climate Action ,Nanopores ,Coal ,Mechanics of Materials ,adsorption ,General Materials Science ,Nanoscience & Nanotechnology ,metal-organic frameworks ,Metal-Organic Frameworks ,Power Plants - Abstract
The heat capacity of a material is a fundamental property of great practical importance. For example, in a carbon capture process, the heat required to regenerate a solid sorbent is directly related to the heat capacity of the material. However, for most materials suitable for carbon capture applications, the heat capacity is not known, and thus the standard procedure is to assume the same value for all materials. In this work, we developed a machine learning approach, trained on density functional theory simulations, to accurately predict the heat capacity of these materials, that is, zeolites, metal-organic frameworks and covalent-organic frameworks. The accuracy of our prediction is confirmed with experimental data. Finally, for a temperature swing adsorption process that captures carbon from the flue gas of a coal-fired power plant, we show that for some materials, the heat requirement is reduced by as much as a factor of two using the correct heat capacity.
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- 2022
9. Metal Organic Frameworks for Xenon Storage Applications
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Praveen K. Thallapally, Wenqian Xu, Mona H. Mohamed, Sameh K. Elsaidi, Radha Kishan Motkuri, Maciej Haranczyk, and Daniele Ongari
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Materials science ,business.industry ,General Chemical Engineering ,Biomedical Engineering ,chemistry.chemical_element ,Context (language use) ,Adsorption ,Xenon ,chemistry ,General Materials Science ,Metal-organic framework ,Process engineering ,business ,Porosity - Abstract
The demand for cheap and convenient xenon storage continues to rise because of its wide spectrum of applications. It is expected that solid-state adsorbents can provide significant advantages over the current isolated stainless-steel tank-based storage technologies. In this context, we investigated metal organic frameworks for use as adsorbents for xenon. Initially, three representative MOFs were synthesized and characterized in terms of Xe storage. The results were used to validate a computational modeling approach, which was later extended to a larger set of materials. The collected results allowed us to rationalize the key parameters (pore volume, surface area, void fraction etc.), which are important for good performance and selection of the best materials for xenon storage.
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- 2020
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10. Color-tunable and high quantum-yield luminescence from a biomolecule-inspired single species emitter of white light
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Ozge Kadioglu, Seryio Saris, Andrzej Gładysiak, Paul J. Dyson, Daniele Ongari, Kyriakos C. Stylianou, Amber Mace, Maria Fumanal, Berend Smit, Christopher P. Ireland, Fatmah Mish Ebrahim, Serhii Shyshkanov, and Kevin Maik Jablonka
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chemistry.chemical_classification ,Fabrication ,Materials science ,Photoluminescence ,business.industry ,Biomolecule ,Quantum yield ,Substrate (electronics) ,law.invention ,chemistry ,law ,Optoelectronics ,business ,Luminescence ,Common emitter ,Light-emitting diode - Abstract
Single-species light emitters with high photoluminescence quantum yields (PLQYs) and broad- spectrum color tunability are sought-after for applications ranging from bio-imaging to artificial lighting. We explore a new strategy to design such emitters, inspired by bioluminescent fireflies and click-beetles. These organisms use a single molecular substrate, D-Luciferin (LH2), to emit light ranging in color from green to red. By combining LH2 with metals, we synthesize new bio-analogous, color-tunable, luminescent metal complexes. The copper complex forms an organic molecule of intrinsic microporosity (OMIM), which crystallizes into a stable structure with intermolecular voids. By changing the composition of guest molecules in the voids, we can tune the emitted color. The optimum composition gives nearly perfect white light, with the highest PLQY reported for a single-species white- light emitter. Similarities between our OMIM and the luciferase active site provide a new approach to investigating the heavily-debated mechanisms underlying in-vivo bioluminescence color variations. Moreover, as a proof of principle, we show that these materials can be used in a new type of light- emitting device (LED). The current generation of LEDs requires at least two active layers to achieve color tunability. The tunability is intrinsic in our materials, and therefore may lead to simpler device fabrication.
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- 2021
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11. Pyrene-based metal organic frameworks: from synthesis to applications
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Christopher P. Ireland, Berend Smit, Daniele Ongari, Andres Ortega-Guerrero, and F. Pelin Kinik
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Materials science ,fungi ,Nanotechnology ,02 engineering and technology ,General Chemistry ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,chemistry.chemical_compound ,chemistry ,Pyrene ,Metal-organic framework ,0210 nano-technology ,Electronic properties - Abstract
Pyrene is one of the most widely investigated aromatic hydrocarbons given to its unique optical and electronic properties. Hence, pyrene-based ligands have been attractive for the synthesis of metal-organic frameworks (MOFs) in the last few years. In this review, we will focus on the most important characteristics of pyrene, in addition to the development and synthesis of pyrene-based molecules as bridging ligands to be used in MOF structures. We will summarize the synthesis attempts, as well as the post-synthetic modifications of pyrene-based MOFs by the incorporation of metals or ligands in the structure. The discussion of promising results of such MOFs in several applications; including luminescence, photocatalysis, adsorption and separation, heterogeneous catalysis, electrochemical applications and bio-medical applications will be highlighted. Finally, some insights and future prospects will be given based on the studies discussed in the review. This review will pave the way for the researchers in the field for the design and development of novel pyrene-based structures and their utilization for different applications.
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- 2021
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12. Advanced methodology for screening of novel adsorption materials for cost-efficient CO2 capture
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John Young, Berend Smit, Viktoriia Kulakova, Luca Riboldi, Enrique García-Díez, Chao Fu, Sauradeep Majumdar, Mijndert van der Spek, Simon Roussanaly, Eva Sanchez-Fernandez, Charithea Charalambous, Rahul Anantharaman, Elias Moubarak, Susana Garcia, and Daniele Ongari
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Cost efficiency ,Computer science ,business.industry ,Process (engineering) ,Combined cycle ,Waste-to-energy plant ,law.invention ,Adsorption ,Carbon price ,law ,Metric (unit) ,Performance indicator ,Process engineering ,business - Abstract
Adsorption is a promising technology to develop cost-effective carbon capture solutions for the energy and industrial sectors. The PrISMa project aims to develop a technology platform to allow translating specific carbon abatement requirements for CO2 source-sink combinations into key performance indicators (KPIs) that will further translate into property targets for the design of novel materials. This is possible by using materials such as metal organic frameworks (MOFs) which can be tailor-made according to the requirements of the separation process. This work presents the progress on the development of one of the main building blocks for the PrISMa technology platform: a computer-based techno-economic screening tool for the screening of novel adsorption materials. The developed screening tool provides the user with a suite of fit-for-purpose models of adsorption processes that allow to co-optimize the material and process domains. The techno-economic screening tool utilizes the effective carbon price (ECP) as the ultimate metric for the identification of the most promising adsorbent materials, either readily existing, or still to be synthesized. This work presents a preliminary screening of novel adsorption materials for cost-effective CO2 capture for two different applications – a waste to energy plant and an offshore gas turbine combined cycle.
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- 2021
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13. Thermoelasticity of Flexible Organic Crystals from Quasi-harmonic Lattice Dynamics: The Case of Copper(II) Acetylacetonate
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Berend Smit, Daniele Ongari, Alessandro Erba, Seyed Mohamad Moosavi, and Jefferson Maul
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Materials science ,Letter ,Thermodynamics ,chemistry.chemical_element ,02 engineering and technology ,Atmospheric temperature range ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,Copper ,Thermal expansion ,0104 chemical sciences ,Moduli ,Crystal ,Thermoelastic damping ,chemistry ,Thermal ,Physical Sciences ,Chemical Sciences ,General Materials Science ,Physical and Theoretical Chemistry ,0210 nano-technology ,Elastic modulus - Abstract
A computationally affordable approach, based on quasi-harmonic lattice dynamics, is presented for the quantum-mechanical calculation of thermoelastic moduli of flexible, stimuli-responsive, organic crystals. The methodology relies on the simultaneous description of structural changes induced by thermal expansion and strain. The complete thermoelastic response of the mechanically flexible metal-organic copper(II) acetylacetonate crystal is determined and discussed in the temperature range 0-300 K. The elastic moduli do not just shrink with temperature but they do so anisotropically. The present results clearly indicate the need for an explicit account of thermal effects in the simulation of mechanical properties of elastically flexible organic materials. Indeed, predictions from standard static calculations on this flexible metal-organic crystal are off by up to 100%.
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- 2020
14. Understanding the Diversity of the Metal-Organic Framework Ecosystem
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Jon Paul Janet, Daniele Ongari, Kevin Maik Jablonka, Yong Jin Lee, Seyed Mohamad Moosavi, Heather J. Kulik, Peter G. Boyd, Aditya Nandy, and Berend Smit
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Theory and computation ,Structure (mathematical logic) ,010405 organic chemistry ,Computer science ,Formalism (philosophy) ,Science ,Ecology (disciplines) ,Material Design ,Variation (game tree) ,Metal-organic frameworks ,Space (commercial competition) ,010402 general chemistry ,computer.software_genre ,01 natural sciences ,Article ,0104 chemical sciences ,Set (abstract data type) ,Chemistry ,Lead (geology) ,lcsh:Q ,Data mining ,lcsh:Science ,computer ,Materials for energy and catalysis - Abstract
Millions of distinct metal-organic frameworks (MOFs) can be made by combining metal nodes and organic linkers. At present, over 90,000 MOFs have been synthesized and over 500,000 predicted. This raises the question whether a new experimental or predicted structure adds new information. For MOF chemists, the chemical design space is a combination of pore geometry, metal nodes, organic linkers, and functional groups, but at present we do not have a formalism to quantify optimal coverage of chemical design space. In this work, we develop a machine learning method to quantify similarities of MOFs to analyse their chemical diversity. This diversity analysis identifies biases in the databases, and we show that such bias can lead to incorrect conclusions. The developed formalism in this study provides a simple and practical guideline to see whether new structures will have the potential for new insights, or constitute a relatively small variation of existing structures., At present there are databases with over 500,000 predicted or synthesized MOF structures, yet a method to establish whether a new material adds new information does not exist. Here the authors propose a machine-learning based approach to quantify the structural and chemical diversity in common MOF databases.
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- 2020
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15. Metal-organic frameworks as kinetic modulators for branched selectivity in hydroformylation
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Davide Tiana, Gerald Bauer, Patrick Gäumann, Marco Ranocchiari, Mohamed Tarik, Daniele Ongari, Gerard Pareras, Thomas Rohrbach, and Berend Smit
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Materials science ,Science ,General Physics and Astronomy ,Homogeneous catalysis ,Catalytic transformations ,010402 general chemistry ,Heterogeneous catalysis ,01 natural sciences ,Article ,General Biochemistry, Genetics and Molecular Biology ,Catalysis ,Adsorption ,Density functional theory (DFT) ,lcsh:Science ,Multidisciplinary ,Catalysts ,Metal–organic frameworks ,010405 organic chemistry ,General Chemistry ,Metal-organic frameworks ,0104 chemical sciences ,Chemical engineering ,lcsh:Q ,Metal-organic framework ,Heterogeneous processes ,Selectivity ,Hydroformylation ,Syngas - Abstract
Finding heterogeneous catalysts that are superior to homogeneous ones for selective catalytic transformations is a major challenge in catalysis. Here, we show how micropores in metal-organic frameworks (MOFs) push homogeneous catalytic reactions into kinetic regimes inaccessible under standard conditions. Such property allows branched selectivity up to 90% in the Co-catalysed hydroformylation of olefins without directing groups, not achievable with existing catalysts. This finding has a big potential in the production of aldehydes for the fine chemical industry. Monte Carlo and density functional theory simulations combined with kinetic models show that the micropores of MOFs with UMCM-1 and MOF-74 topologies increase the olefins density beyond neat conditions while partially preventing the adsorption of syngas leading to high branched selectivity. The easy experimental protocol and the chemical and structural flexibility of MOFs will attract the interest of the fine chemical industries towards the design of heterogeneous processes with exceptional selectivity., The Co-catalysed hydroformylation of olefins produces selectively linear but not branched aldehydes. Here, the authors show that microporous MOFs increase the olefins density in the pores beyond neat conditions allowing high branched selectivity through kinetic modulation when added to a liquid phase hydroformylation mixture.
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- 2020
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16. Big-Data Science in Porous Materials: Materials Genomics and Machine Learning
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Daniele Ongari, Berend Smit, Seyed Mohamad Moosavi, and Kevin Maik Jablonka
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FOS: Computer and information sciences ,Computer Science - Machine Learning ,Surface Properties ,Feature vector ,cs.LG ,Big data ,Stability (learning theory) ,FOS: Physical sciences ,Materials testing ,Review ,010402 general chemistry ,Machine learning ,computer.software_genre ,01 natural sciences ,Field (computer science) ,Machine Learning (cs.LG) ,Machine Learning ,Brute force ,Materials Testing ,Particle Size ,Metal-Organic Frameworks ,Electronic properties ,Condensed Matter - Materials Science ,010405 organic chemistry ,business.industry ,Chemistry ,Data Science ,Materials Science (cond-mat.mtrl-sci) ,General Chemistry ,cond-mat.mtrl-sci ,0104 chemical sciences ,Chemical Sciences ,Artificial intelligence ,business ,computer ,Porosity - Abstract
By combining metal nodes with organic linkers we can potentially synthesize millions of possible metal organic frameworks (MOFs). At present, we have libraries of over ten thousand synthesized materials and millions of in-silico predicted materials. The fact that we have so many materials opens many exciting avenues to tailor make a material that is optimal for a given application. However, from an experimental and computational point of view we simply have too many materials to screen using brute-force techniques. In this review, we show that having so many materials allows us to use big-data methods as a powerful technique to study these materials and to discover complex correlations. The first part of the review gives an introduction to the principles of big-data science. We emphasize the importance of data collection, methods to augment small data sets, how to select appropriate training sets. An important part of this review are the different approaches that are used to represent these materials in feature space. The review also includes a general overview of the different ML techniques, but as most applications in porous materials use supervised ML our review is focused on the different approaches for supervised ML. In particular, we review the different method to optimize the ML process and how to quantify the performance of the different methods. In the second part, we review how the different approaches of ML have been applied to porous materials. In particular, we discuss applications in the field of gas storage and separation, the stability of these materials, their electronic properties, and their synthesis. The range of topics illustrates the large variety of topics that can be studied with big-data science. Given the increasing interest of the scientific community in ML, we expect this list to rapidly expand in the coming years., Editorial changes (typos fixed, minor adjustments to figures)
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- 2020
17. Using Collective Knowledge to Assign Oxidation States
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Kevin Maik Jablonka, Daniele Ongari, Seyed Mohamad Moosavi, and Berend Smit
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Knowledge of the oxidation state of a metal centre in a material is essential to understand its properties. Chemists have developed several theories to predict the oxidation state on the basis of the chemical formula. These methods are quite successful for simple compounds but often fail to describe the oxidation states of more complex systems, such as metal-organic frameworks. In this work, we present a data-driven approach to automatically assign oxidation states, using a machine learning algorithm trained on the assignments by chemists encoded in the chemical names in the Cambridge Crystallographic Database. Our approach only considers the immediate local chemical environment around a metal centre and, in this way, is robust to most of the experimental uncertainties in these structures (like incorrect protonation or unbound solvents). We find such excellent accuracy (> 98 %) in our predictions that we can use our method to identify a large number of incorrect assignments in the database. The predictions of our model follow chemical intuition, without explicitly having taught the model those heuristics. This work nicely illustrates how powerful the collective knowledge of chemists actually is. Machine learning can harvest this knowledge and convert it into a useful tool for chemists.
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- 2020
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18. Too Many Materials and Too Many Applications: An Experimental Problem Waiting for a Computational Solution
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Leopold Talirz, Berend Smit, and Daniele Ongari
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Matching (statistics) ,010405 organic chemistry ,Computer science ,business.industry ,General Chemical Engineering ,Distributed computing ,Sustained growth ,General Chemistry ,010402 general chemistry ,01 natural sciences ,Automation ,Field (computer science) ,0104 chemical sciences ,Chemistry ,Workflow ,Chemical Sciences ,business ,QD1-999 ,Outlook - Abstract
Finding the best material for a specific application is the ultimate goal of materials discovery. However, there is also the reverse problem: when experimental groups discover a new material, they would like to know all the possible applications this material would be promising for. Computational modeling can aim to fulfill this expectation, thanks to the sustained growth of computing power and the collective engagement of the scientific community in developing more efficient and accurate workflows for predicting materials’ performances. We discuss the impact that reproducibility and automation of the modeling protocols have on the field of gas adsorption in nanoporous crystals. We envision a platform that combines these tools and enables effective matching between promising materials and industrial applications., We identify the opportunity for a computational platform for matching nanoporous materials and gas-related applications, motivating the development of automated and reproducible computational workflows.
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- 2020
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19. Photocatalytic Hydrogen Generation from a Visible-Light-Responsive Metal–Organic Framework System: Stability versus Activity of Molybdenum Sulfide Cocatalysts
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Bardiya Valizadeh, Ophélie Marie Planes, Stavroula Kampouri, Kyriakos C. Stylianou, Andreas Züttel, Tu N. Nguyen, Daniele Ongari, Berend Smit, and Wen Luo
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Materials science ,metal−organic framework ,Hydrogen ,chemistry.chemical_element ,Nanoparticle ,02 engineering and technology ,010402 general chemistry ,Photochemistry ,01 natural sciences ,7. Clean energy ,Catalysis ,Electron transfer ,Engineering ,Affordable and Clean Energy ,molybdenum sulfide ,General Materials Science ,Nanoscience & Nanotechnology ,visible light ,Hydrogen production ,metal-organic framework ,021001 nanoscience & nanotechnology ,0104 chemical sciences ,chemistry ,hydrogen ,Chemical Sciences ,Photocatalysis ,Water splitting ,Metal-organic framework ,0210 nano-technology ,photocatalysis - Abstract
We report the use of two earth abundant molybdenum sulfide-based cocatalysts, Mo3S132- clusters and 1T-MoS2 nanoparticles (NPs), in combination with the visible-light active metal-organic framework (MOF) MIL-125-NH2 for the photocatalytic generation of hydrogen (H2) from water splitting. Upon irradiation (λ ≥ 420 nm), the best-performing mixtures of Mo3S132-/MIL-125-NH2 and 1T-MoS2/MIL-125-NH2 exhibit high catalytic activity, producing H2 with evolution rates of 2094 and 1454 μmol h-1 gMOF-1 and apparent quantum yields of 11.0 and 5.8% at 450 nm, respectively, which are among the highest values reported to date for visible-light-driven photocatalysis with MOFs. The high performance of Mo3S132- can be attributed to the good contact between these clusters and the MOF and the large number of catalytically active sites, while the high activity of 1T-MoS2 NPs is due to their high electrical conductivity leading to fast electron transfer processes. Recycling experiments revealed that although the Mo3S132-/MIL-125-NH2 slowly loses its activity, the 1T-MoS2/MIL-125-NH2 retains its activity for at least 72 h. This work indicates that earth-abundant compounds can be stable and highly catalytically active for photocatalytic water splitting, and should be considered as promising cocatalysts with new MOFs besides the traditional noble metal NPs.
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- 2018
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20. Xenon Recovery at Room Temperature using Metal–Organic Frameworks
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Wenqian Xu, Sameh K. Elsaidi, Daniele Ongari, Maciej Haranczyk, Mona H. Mohamed, and Praveen K. Thallapally
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Chemical substance ,Chemistry ,Organic Chemistry ,Analytical chemistry ,chemistry.chemical_element ,02 engineering and technology ,General Chemistry ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,Catalysis ,0104 chemical sciences ,law.invention ,Adsorption ,Xenon ,law ,Metal-organic framework ,Gas separation ,0210 nano-technology ,Selectivity ,Science, technology and society ,Distillation ,Nuclear chemistry - Abstract
Xenon is known to be a very efficient anesthetic gas, but its cost prohibits the wider use in medical industry and other potential applications. It has been shown that Xe recovery and recycling from anesthetic gas mixtures can significantly reduce its cost as anesthetic. The current technology uses series of adsorbent columns followed by low-temperature distillation to recover Xe; this method is expensive to use in medical facilities. Herein, we propose a much simpler and more efficient system to recover and recycle Xe from exhaled anesthetic gas mixtures at room temperature using metal-organic frameworks (MOFs). Among the MOFs tested, PCN-12 exhibits unprecedented performance with high Xe capacity and Xe/O2 , Xe/N2 and Xe/CO2 selectivity at room temperature. The in situ synchrotron measurements suggest that Xe is occupies the small pockets of PCN-12 compared to unsaturated metal centers (UMCs). Computational modeling of adsorption further supports our experimental observation of Xe binding sites in PCN-12.
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- 2017
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21. Using collective knowledge to assign oxidation states of metal cations in metal-organic frameworks
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Kevin Maik Jablonka, Seyed Mohamad Moosavi, Daniele Ongari, and Berend Smit
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Theoretical computer science ,Chemistry ,General Chemical Engineering ,Chemical nomenclature ,Collective intelligence ,02 engineering and technology ,General Chemistry ,010402 general chemistry ,021001 nanoscience & nanotechnology ,01 natural sciences ,0104 chemical sciences ,Bond length ,Metal ,Chemical bond ,Oxidation state ,visual_art ,Hardware_INTEGRATEDCIRCUITS ,visual_art.visual_art_medium ,Local environment ,Metal-organic framework ,0210 nano-technology - Abstract
Knowledge of the oxidation state of metal centres in compounds and materials helps in the understanding of their chemical bonding and properties. Chemists have developed theories to predict oxidation states based on electron-counting rules, but these can fail to describe oxidation states in extended crystalline systems such as metal-organic frameworks. Here we propose the use of a machine-learning model, trained on assignments by chemists encoded in the chemical names in the Cambridge Structural Database, to automatically assign oxidation states to the metal ions in metal-organic frameworks. In our approach, only the immediate local environment around a metal centre is considered. We show that the strategy is robust to experimental uncertainties such as incorrect protonation, unbound solvents or changes in bond length. This method gives good accuracy and we show that it can be used to detect incorrect assignments in the Cambridge Structural Database, illustrating how collective knowledge can be captured by machine learning and converted into a useful tool.
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- 2019
22. Applicability of Tail Corrections in the Molecular Simulations of Porous Materials
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Kevin Maik Jablonka, Berend Smit, and Daniele Ongari
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Work (thermodynamics) ,Truncation ,force-field ,zeolites ,Radial distribution function ,chemistry ,01 natural sciences ,Article ,storage ,Computer Software ,Theoretical and Computational Chemistry ,0103 physical sciences ,Cutoff ,Periodic boundary conditions ,Statistical physics ,Physical and Theoretical Chemistry ,Physics ,Chemical Physics ,010304 chemical physics ,Nanoporous ,atom ,in-silico design ,Computer Science Applications ,adsorption ,Biochemistry and Cell Biology ,Porous medium ,Dispersion (chemistry) ,covalent organic frameworks - Abstract
Molecular simulations with periodic boundary conditions require to define a certain cutoff distance beyond which pairwise dispersion interactions are neglected. For the simulation of homogeneous phases it is well-established to use tail-corrections, that can remedy this truncation of the potential. These corrections are built under the assumption that beyond the cutoff the radial distribution function is equal to one. In this work we shed some light on the discussion whether or not tail corrections should be used in the modelling of heterogeneous systems. We show that for the adsorption of gasses in a diverse set nanoporous crystalline materials (zeolites, Covalent Organic Frameworks (COFs), and Metal Organic Frameworks (MOFs)), tail-corrections are an appropriate choice with which the results are much less sensitive to the details of the truncation.
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- 2019
23. Evaluating Charge Equilibration Methods To Generate Electrostatic Fields in Nanoporous Materials
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Daniele Ongari, Berend Smit, Peter G. Boyd, Amber Mace, Seda Keskin, Ozge Kadioglu, Avcı, Seda Keskin (ORCID 0000-0001-5968-0336 & YÖK ID 40548), Kadıoğlu, Özge, Ongari, Daniele, Boyd, Peter G., Mace, Amber K., Smit, Berend, Graduate School of Sciences and Engineering, and Department of Chemical and Biological Engineering
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Systematic error ,basis-sets ,Materials science ,force-field ,electronegativity equalization method ,carbon-dioxide ,01 natural sciences ,Force field (chemistry) ,Article ,Computer Software ,Partial charge ,Adsorption ,Theoretical and Computational Chemistry ,population analysis ,0103 physical sciences ,Atomic charge ,Statistical physics ,Physical and Theoretical Chemistry ,metal-organic frameworks ,molecular-mechanics ,Chemical Physics ,010304 chemical physics ,Nanoporous ,Chemical polarity ,Microporous material ,Computer Science Applications ,computation-ready ,potentials ,Metal-organic frameworks ,Electronegativity equalization method ,Atomic charges ,Force-field ,Basis-sets ,Molecular-mechanics ,Population analysis ,Computation-ready ,Carbon-dioxide ,Potentials ,atomic charges ,Biochemistry and Cell Biology ,Chemistry ,Physics - Abstract
Charge equilibration (Qeq) methods can estimate the electrostatic potential of molecules and periodic frameworks by assigning point charges to each atom, using only a small fraction of the resources needed to compute density functional (DFT)-derived charges. This makes possible, for example, the computational screening of thousands of microporous structures to assess their performance for the adsorption of polar molecules. Recently, different variants of the original Qeq scheme were proposed to improve the quality of the computed point charges. One focus of this research was to improve the gas adsorption predictions in metal-organic frameworks (MOFs), for which many different structures are available. In this work, we review the evolution of the method from the original Qeq scheme, understanding the role of the different modifications on the final output. We evaluated the result of combining different protocols and set of parameters, by comparing the Qeq charges with high quality DFT-derived DDEC charges for 2338 MOF structures. We focused on the systematic errors that are attributable to specific atom types to quantify the final precision that one can expect from Qeq methods in the context of gas adsorption where the electrostatic potential plays a significant role, namely, CO2 and H2S adsorption. In conclusion, both the type of algorithm and the input parameters have a large impact on the resulting charges, and we draw some guidelines to help the user to choose the proper combination of the two for obtaining a meaningful set of charges. We show that, considering this set of MOFs, the accuracy of the original Qeq scheme is often still comparable with the most recent variants, even if it clearly fails in the presence of certain atom types, such as alkali metals., European Union (EU); H2020; European Research Council (ERC)-2017-Starting Grant; Swedish Science Council (VR); Swiss National Supercomputing Centre (CSCS); European Research Council (ERC) European Union’s Horizon 2020 research and innovation programme; NCCR Marvel; INSPIRE Potentials Master's Fellowship; COSMOS
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- 2018
24. Biporous Metal-Organic Framework with Tunable CO
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Andrzej, Gładysiak, Kathryn S, Deeg, Iurii, Dovgaliuk, Arunraj, Chidambaram, Kaili, Ordiz, Peter G, Boyd, Seyed Mohamad, Moosavi, Daniele, Ongari, Jorge A R, Navarro, Berend, Smit, and Kyriakos C, Stylianou
- Subjects
biporous MOFs ,CO2/CH4 separation ,metal−organic frameworks ,breakthrough curves ,gas adsorption ,Research Article - Abstract
In this work, we report the synthesis of SION-8, a novel metal–organic framework (MOF) based on Ca(II) and a tetracarboxylate ligand TBAPy4– endowed with two chemically distinct types of pores characterized by their hydrophobic and hydrophilic properties. By altering the activation conditions, we gained access to two bulk materials: the fully activated SION-8F and the partially activated SION-8P with exclusively the hydrophobic pores activated. SION-8P shows high affinity for both CO2 (Qst = 28.4 kJ/mol) and CH4 (Qst = 21.4 kJ/mol), while upon full activation, the difference in affinity for CO2 (Qst = 23.4 kJ/mol) and CH4 (Qst = 16.0 kJ/mol) is more pronounced. The intrinsic flexibility of both materials results in complex adsorption behavior and greater adsorption of gas molecules than if the materials were rigid. Their CO2/CH4 separation performance was tested in fixed-bed breakthrough experiments using binary gas mixtures of different compositions and rationalized in terms of molecular interactions. SION-8F showed a 40–160% increase (depending on the temperature and the gas mixture composition probed) of the CO2/CH4 dynamic breakthrough selectivity compared to SION-8P, demonstrating the possibility to rationally tune the separation performance of a single MOF by manipulating the stepwise activation made possible by the MOF’s biporous nature.
- Published
- 2018
25. Biporous Metal-Organic Framework with Tunable CO2/CH4 Separation Performance Facilitated by Intrinsic Flexibility
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Berend Smit, Jorge A. R. Navarro, Daniele Ongari, Peter G. Boyd, Iurii Dovgaliuk, Kathryn S. Deeg, Kaili Y. Ordiz, Arunraj Chidambaram, Seyed Mohamad Moosavi, Kyriakos C. Stylianou, Andrzej Gładysiak, Institut des Sciences et Ingénierie Chimiques (ISIC), Ecole Polytechnique Fédérale de Lausanne (EPFL), Department of Chemistry [Berkeley], University of California [Berkeley], University of California-University of California, European Synchrotron Radiation Facility (ESRF), Department of Chemical and Biomolecular Engineering [Los Angeles], University of California [Los Angeles] (UCLA), Departamento de Química Inorgánica, Facultad de Ciencias, Universidad de Granada, and Universidad de Granada (UGR)
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CO2/CH4separation ,Materials science ,force-field ,water ,breakthrough curves ,gas adsorption ,010402 general chemistry ,metal-oranic frameworks ,01 natural sciences ,carbon-dioxide capture ,crystal ,Adsorption ,Engineering ,hydrophobic channels ,Molecule ,co2/ch4 separation ,General Materials Science ,gases ,Nanoscience & Nanotechnology ,[PHYS]Physics [physics] ,Molecular interactions ,ch4 ,010405 organic chemistry ,biporous MOFs ,0104 chemical sciences ,co2 capture ,Chemical engineering ,adsorption ,CO2/CH4 separation ,Chemical Sciences ,Metal-organic framework ,metal−organic frameworks ,simulations ,Selectivity - Abstract
International audience; In this work, we report the synthesis of SION-8, a novel metal-organic framework (MOF) based on Ca(II) and a tetracarboxylate ligand TBAPy(4-) endowed with two chemically distinct types of pores characterized by their hydrophobic and hydrophilic properties. By altering the activation conditions, we gained access to two bulk materials: the fully activated SION-8F and the partially activated SION-8P with exclusively the hydrophobic pores activated. SION-8P shows high affinity for both CO2 (Q(st) = 28.4 kJ/mol) and CH4 (Q(st) = 21.4 kJ/mol), while upon full activation, the difference in affinity for CO2 (Q(st) = 23.4 kJ/mol) and CH4 (Q(st) = 16.0 kJ/mol) is more pronounced. The intrinsic flexibility of both materials results in complex adsorption behavior and greater adsorption of gas molecules than if the materials were rigid. Their CO2/CH4 separation performance was tested in fixed-bed breakthrough experiments using binary gas mixtures of different compositions and rationalized in terms of molecular interactions. SION-8F showed a 40-160% increase (depending on the temperature and the gas mixture composition probed) of the CO2/CH4 dynamic breakthrough selectivity compared to SION-8P, demonstrating the possibility to rationally tune the separation performance of a single MOF by manipulating the stepwise activation made possible by the MOF's biporous nature.
- Published
- 2018
- Full Text
- View/download PDF
26. Accurate Characterization of the Pore Volume in Microporous Crystalline Materials
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Peter G. Boyd, Berend Smit, Daniele Ongari, Maciej Haranczyk, Matthew Witman, and Senja Barthel
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Void (astronomy) ,Materials science ,Chemical Physics ,Crystalline materials ,Thermodynamics ,chemistry.chemical_element ,02 engineering and technology ,Surfaces and Interfaces ,Microporous material ,010402 general chemistry ,021001 nanoscience & nanotechnology ,Condensed Matter Physics ,01 natural sciences ,Article ,0104 chemical sciences ,Crystallography ,chemistry ,Electrochemistry ,General Materials Science ,0210 nano-technology ,Spectroscopy ,Helium - Abstract
© 2017 American Chemical Society. Pore volume is one of the main properties for the characterization of microporous crystals. It is experimentally measurable, and it can also be obtained from the refined unit cell by a number of computational techniques. In this work, we assess the accuracy and the discrepancies between the different computational methods which are commonly used for this purpose, i.e, geometric, helium, and probe center pore volumes, by studying a database of more than 5000 frameworks. We developed a new technique to fully characterize the internal void of a microporous material and to compute the probe-accessible and -occupiable pore volume. We show that, unlike the other definitions of pore volume, the occupiable pore volume can be directly related to the experimentally measured pore volumes from nitrogen isotherms.
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- 2017
- Full Text
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27. A bi-porous metal–organic framework with tuneable sorption performance facilitated by intrinsic flexibility
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Andrzej Gładysiak, Kyriakos C. Stylianou, Iurii Dovgaliuk, Jorge A. R. Navarro, Daniele Ongari, Seyed Mohamad Moosavi, Kaili Y. Ordiz, Kathryn S. Deeg, and Berend Smit
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Inorganic Chemistry ,Porous metal ,Flexibility (engineering) ,Materials science ,Chemical engineering ,Structural Biology ,General Materials Science ,Sorption ,Physical and Theoretical Chemistry ,Condensed Matter Physics ,Biochemistry - Published
- 2018
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28. Origin of the Strong Interaction between Polar Molecules and Copper(II) Paddle-Wheels in Metal Organic Frameworks
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Davide Tiana, Samuel J. Stoneburner, Daniele Ongari, Laura Gagliardi, and Berend Smit
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Technology ,Perturbation techniques ,Strong interaction ,chemistry.chemical_element ,02 engineering and technology ,Carbon dioxide adsorption ,Perturbation theory ,010402 general chemistry ,Physical Chemistry ,01 natural sciences ,London dispersion force ,Article ,chemistry.chemical_compound ,Engineering ,Computational chemistry ,Interaction energies ,Formate ,Physical and Theoretical Chemistry ,Chemical polarity ,Organometallics ,Interaction energy ,Parametrizations ,Molecules ,021001 nanoscience & nanotechnology ,Copper ,Carbon ,0104 chemical sciences ,Surfaces, Coatings and Films ,Electronic, Optical and Magnetic Materials ,Propellers ,Gas adsorption ,Metal organic framework ,General Energy ,Density functional theory methods ,chemistry ,Carbon dioxide ,Chemical physics ,Chemical Sciences ,Density functional theory ,Metal-organic framework ,Multireference wave functions ,0210 nano-technology - Abstract
© 2017 American Chemical Society. The copper paddle-wheel is the building unit of many metal organic frameworks. Because of the ability of the copper cations to attract polar molecules, copper paddle-wheels are promising for carbon dioxide adsorption and separation. They have therefore been studied extensively, both experimentally and computationally. In this work we investigate the copper-CO2interaction in HKUST-1 and in two different cluster models of HKUST-1: monocopper Cu(formate)2and dicopper Cu2(formate)4. We show that density functional theory methods severely underestimate the interaction energy between copper paddle-wheels and CO2, even including corrections for the dispersion forces. In contrast, a multireference wave function followed by perturbation theory to second order using the CASPT2 method correctly describes this interaction. The restricted open-shell Møller-Plesset 2 method (ROS-MP2, equivalent to (2,2) CASPT2) was also found to be adequate in describing the system and used to develop a novel force field. Our parametrization is able to predict the experimental CO2adsorption isotherms in HKUST-1, and it is shown to be transferable to other copper paddle-wheel systems.
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29. Photocatalytic hydrogen generation from a visible-light responsive metal–organic framework system: the impact of nickel phosphide nanoparticles
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Amber Mace, Fatmah Mish Ebrahim, Kyriakos C. Stylianou, Berend Smit, Tu N. Nguyen, Stavroula Kampouri, Daniele Ongari, Gloria Capano, Kevin Sivula, Andrzej Sienkiewicz, László Forró, Christopher P. Ireland, Néstor Guijarro, and Bardiya Valizadeh
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Materials science ,Renewable Energy, Sustainability and the Environment ,Phosphide ,Nanoparticle ,chemistry.chemical_element ,02 engineering and technology ,General Chemistry ,010402 general chemistry ,021001 nanoscience & nanotechnology ,Photochemistry ,01 natural sciences ,7. Clean energy ,0104 chemical sciences ,chemistry.chemical_compound ,Nickel ,chemistry ,Photocatalysis ,General Materials Science ,Metal-organic framework ,0210 nano-technology ,Photocatalytic water splitting ,Hydrogen production ,Visible spectrum - Abstract
Herein, we report the performance of a photocatalytic system based on visible-light active MIL-125-NH2 mixed with nickel phosphide (Ni2P) nanoparticles. This combination boosts the H2 evolution rate to an outstanding value of 894 μmol h−1 g−1 under visible-light irradiation, which is among the highest H2 evolution rates reported to date for metal–organic frameworks (MOFs). The H2 generation rate exhibited by Ni2P/MIL-125-NH2 is almost 3 times higher than that of the Pt/MIL-125-NH2 system, highlighting the impact of the co-catalyst on photocatalytic water splitting. Additionally, our system outperforms the Ni2P/TiO2 system under UV-vis irradiation. The exceptional performance of Ni2P/MIL-125-NH2 is due to the efficient transfer of photogenerated electrons from MIL-125-NH2 to Ni2P, high intrinsic activity of Ni2P and exceptional synergy between them. This system exhibits the highest apparent quantum yields of 27.0 and 6.6% at 400 and 450 nm, respectively, ever reported for MOFs.
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30. Can Metal–Organic Frameworks Be Used for Cannabis Breathalyzers?
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Yifei Michelle Liu, Daniele Ongari, and Berend Smit
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Materials science ,biology ,Nanotechnology ,02 engineering and technology ,Microporous material ,010402 general chemistry ,021001 nanoscience & nanotechnology ,16. Peace & justice ,biology.organism_classification ,01 natural sciences ,0104 chemical sciences ,Breath Tests ,Models, Chemical ,Humans ,Computer Simulation ,General Materials Science ,Metal-organic framework ,Dronabinol ,Cannabis ,0210 nano-technology ,Metal-Organic Frameworks - Abstract
Δ9-Tetrahydrocannabinol (THC) is the principal psychoactive component of cannabis, and there is an urgent need to build low-cost and portable devices that can detect its presence from breath. Similarly to alcohol detectors, these tools can be used by law enforcement to determine driver intoxication and enforce safer and more regulated use of cannabis. In this work, we propose to use a class of microporous crystals, metal-organic frameworks (MOFs), to selectively adsorb THC that can be later detected using optical, electrochemical, or fluorescence-based sensing methods. We computationally screened more than 5000 MOFs, highlighting the materials that have the largest affinity with THC, as well as the highest selectivity against water, showing that it is thermodynamically feasible for MOFs to adsorb THC from humid breath. We propose and compare different models for THC and different computational protocols to rank the promising materials, also presenting a novel approach to assess the permeability of a porous framework to nonspherical molecules. We identified three adsorption motifs in MOFs with high affinity to THC, which we refer to as "narrow channels", "thick walls", and "parking spots". Therefore, we expect our protocols and our findings to be generalizable for different classes of microporous materials and also for investigating the adsorption properties of other large molecules that, like THC, have a nonspherical shape.
31. Diversifying Databases of Metal Organic Frameworks for High-Throughput Computational Screening
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Daniele Ongari, Seyed Mohamad Moosavi, Kevin Maik Jablonka, Sauradeep Majumdar, and Berend Smit
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construction ,Monte Carlo method ,force-field ,design ,02 engineering and technology ,010402 general chemistry ,computer.software_genre ,algorithms ,01 natural sciences ,diversity ,hydrogen storage ,Hydrogen storage ,Engineering ,General Materials Science ,Nanoscience & Nanotechnology ,Throughput (business) ,Infinite number ,Database ,carbon capture ,Post combustion ,021001 nanoscience & nanotechnology ,MOFs ,0104 chemical sciences ,Climate Action ,co2 capture ,machine learning ,Chemical Sciences ,Benchmark (computing) ,Metal-organic framework ,molecular simulations ,0210 nano-technology ,computer ,Chemical design ,mofs ,flue-gas ,discovery ,Research Article - Abstract
By combining metal nodes and organic linkers, an infinite number of metal organic frameworks (MOFs) can be designed in silico. Therefore, when making new databases of such hypothetical MOFs, we need to ensure that they not only contribute toward the growth of the count of structures but also add different chemistries to the existing databases. In this study, we designed a database of similar to 20,000 hypothetical MOFs, which are diverse in terms of their chemical design space-metal nodes, organic linkers, functional groups, and pore geometries. Using machine learning techniques, we visualized and quantified the diversity of these structures. We find that on adding the structures of our database, the overall diversity metrics of hypothetical databases improve, especially in terms of the chemistry of metal nodes. We then assessed the usefulness of diverse structures by evaluating their performance, using grand-canonical Monte Carlo simulations, in two important environmental applications-post-combustion carbon capture and hydrogen storage. We find that many of these structures perform better than widely used benchmark materials such as Zeolite-13X (for post-combustion carbon capture) and MOF-5 (for hydrogen storage). All the structures developed in this study, and their properties, are provided on the Materials Cloud to encourage further use of these materials for other applications.
32. Building a Consistent and Reproducible Database for Adsorption Evaluation in Covalent-Organic Frameworks
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Leopold Talirz, Aliaksandr V. Yakutovich, Daniele Ongari, and Berend Smit
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Process modeling ,Computer science ,General Chemical Engineering ,molecular-dynamics ,010402 general chemistry ,computer.software_genre ,carbon-dioxide ,01 natural sciences ,Set (abstract data type) ,storage ,Point (geometry) ,crystalline ,QD1-999 ,Database ,010405 organic chemistry ,methane ,General Chemistry ,in-silico design ,0104 chemical sciences ,Chemistry ,computation-ready ,Workflow ,Networking and Information Technology R&D ,networks ,hydrogen ,Path (graph theory) ,Chemical Sciences ,Graph (abstract data type) ,Density functional theory ,computer ,2d ,Research Article ,Covalent organic framework - Abstract
We present a workflow that traces the path from the bulk structure of a crystalline material to assessing its performance in carbon capture from coal’s postcombustion flue gases. This workflow is applied to a database of 324 covalent–organic frameworks (COFs) reported in the literature, to characterize their CO2 adsorption properties using the following steps: (1) optimization of the crystal structure (atomic positions and unit cell) using density functional theory, (2) fitting atomic point charges based on the electron density, (3) characterizing the pore geometry of the structures before and after optimization, (4) computing carbon dioxide and nitrogen isotherms using grand canonical Monte Carlo simulations with an empirical interaction potential, and finally, (5) assessing the CO2 parasitic energy via process modeling. The full workflow has been encoded in the Automated Interactive Infrastructure and Database for Computational Science (AiiDA). Both the workflow and the automatically generated provenance graph of our calculations are made available on the Materials Cloud, allowing peers to inspect every input parameter and result along the workflow, download structures and files at intermediate stages, and start their research right from where this work has left off. In particular, our set of CURATED (Clean, Uniform, and Refined with Automatic Tracking from Experimental Database) COFs, having optimized geometry and high-quality DFT-derived point charges, are available for further investigations of gas adsorption properties. We plan to update the database as new COFs are being reported., An automated and reproducible computational workflow is proposed, to systematically optimize the geometry of covalent−organic frameworks and evaluate their performances for carbon capture and storage.
33. In Silico Discovery of Covalent Organic Frameworks for Carbon Capture
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Kathryn S. Deeg, Berend Smit, Daniele Ongari, Johanna M. Huck, Daiane Damasceno Borges, Nakul Rampal, Aliaksandr V. Yakutovich, and Leopold Talirz
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Materials science ,parasitic energy ,In silico ,Equilibration method ,Molecular simulation ,02 engineering and technology ,010402 general chemistry ,algorithms ,01 natural sciences ,molecular simulation ,storage ,Partial charge ,gas ,genetic algorithm ,General Materials Science ,gas separation ,Topology (chemistry) ,database ,carbon capture ,methane ,charge equilibration ,021001 nanoscience & nanotechnology ,charge equilibration method ,0104 chemical sciences ,co2 capture ,Covalent bond ,adsorption ,Metric (mathematics) ,0210 nano-technology ,Biological system ,covalent organic frameworks ,dioxide capture - Abstract
We screen a database of more than 69,000 hypothetical covalent organic frameworks (COFs) for carbon capture, using parasitic energy as a metric. In order to compute CO2-framework interactions in molecular simulations, we develop a genetic algorithm to tune the charge equilibration method and derive accurate framework partial charges. Nearly 400 COFs are identified with parasitic energy lower than that of an amine scrubbing process using monoethanolamine. Furthermore, we identify over 70 top performers that, based on the same metrics of evaluation, perform comparably to Mg-MOF-74 and outperform reported experimental COFs for this application. We analyze the effect of pore topology on carbon capture performance in order to guide development of improved carbon capture materials.
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