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Hoang Ngoc Minh T, Stoltz G, Rotenberg B. Frequency and field-dependent response of confined electrolytes from Brownian dynamics simulations. J Chem Phys 2023; 158:104103. [PMID: 36922117 DOI: 10.1063/5.0139258] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/17/2023] Open
Abstract
Using Brownian dynamics simulations, we investigate the effects of confinement, adsorption on surfaces, and ion-ion interactions on the response of confined electrolyte solutions to oscillating electric fields in the direction perpendicular to the confining walls. Nonequilibrium simulations allows to characterize the transitions between linear and nonlinear regimes when varying the magnitude and frequency of the applied field, but the linear response, characterized by the frequency-dependent conductivity, is more efficiently predicted from the equilibrium current fluctuations. To that end, we (rederive and) use the Green-Kubo relation appropriate for overdamped dynamics, which differs from the standard one for Newtonian or underdamped Langevin dynamics. This expression highlights the contributions of the underlying Brownian fluctuations and of the interactions of the particles between them and with external potentials. Although already known in the literature, this relation has rarely been used to date, beyond the static limit to determine the effective diffusion coefficient or the DC conductivity. The frequency-dependent conductivity always decays from a bulk-like behavior at high frequency to a vanishing conductivity at low frequency due to the confinement of the charge carriers by the walls. We discuss the characteristic features of the crossover between the two regimes, most importantly how the crossover frequency depends on the confining distance and the salt concentration, and the fact that adsorption on the walls may lead to significant changes both at high and low frequencies. Conversely, our results illustrate the possibility to obtain information on diffusion between walls, charge relaxation, and adsorption by analyzing the frequency-dependent conductivity.
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Affiliation(s)
- Thê Hoang Ngoc Minh
- CNRS, Physicochimie des Électrolytes et Nanosystèmes Interfaciaux, Sorbonne Université, F-75005 Paris, France
| | | | - Benjamin Rotenberg
- CNRS, Physicochimie des Électrolytes et Nanosystèmes Interfaciaux, Sorbonne Université, F-75005 Paris, France
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Potisk T, Sablić J, Svenšek D, Diego ES, Teran FJ, Praprotnik M. Analyte‐Driven Clustering of Bio‐Conjugated Magnetic Nanoparticles. ADVANCED THEORY AND SIMULATIONS 2023. [DOI: 10.1002/adts.202200796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/07/2023]
Affiliation(s)
- Tilen Potisk
- Laboratory for Molecular Modeling National Institute of Chemistry SI‐1001 Ljubljana Slovenia
- Faculty of Mathematics and Physics University of Ljubljana SI‐1001 Ljubljana Slovenia
| | - Jurij Sablić
- Laboratory for Molecular Modeling National Institute of Chemistry SI‐1001 Ljubljana Slovenia
- Department of Condensed Matter Physics University of Barcelona E‐08028 Barcelona Spain
- Centre Européen de Calcul Atomique et Moléculaire École Polytechnique Fédérale de Lausanne (EPFL) 1015 Lausanne Switzerland
| | - Daniel Svenšek
- Laboratory for Molecular Modeling National Institute of Chemistry SI‐1001 Ljubljana Slovenia
- Faculty of Mathematics and Physics University of Ljubljana SI‐1001 Ljubljana Slovenia
| | | | - Francisco J. Teran
- IMDEA Nanociencia Ciudad Universitaria de Cantoblanco 28049 Madrid Spain
- Nanobiotecnología (iMdea‐Nanociencia) Unidad Asociada al Centro Nacional de Biotecnología (CSIC) 28049 Madrid Spain
| | - Matej Praprotnik
- Laboratory for Molecular Modeling National Institute of Chemistry SI‐1001 Ljubljana Slovenia
- Faculty of Mathematics and Physics University of Ljubljana SI‐1001 Ljubljana Slovenia
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MDSuite: comprehensive post-processing tool for particle simulations. J Cheminform 2023; 15:19. [PMID: 36774469 PMCID: PMC9921696 DOI: 10.1186/s13321-023-00687-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2022] [Accepted: 01/22/2023] [Indexed: 02/13/2023] Open
Abstract
Particle-Based (PB) simulations, including Molecular Dynamics (MD), provide access to system observables that are not easily available experimentally. However, in most cases, PB data needs to be processed after a simulation to extract these observables. One of the main challenges in post-processing PB simulations is managing the large amounts of data typically generated without incurring memory or computational capacity limitations. In this work, we introduce the post-processing tool: MDSuite. This software, developed in Python, combines state-of-the-art computing technologies such as TensorFlow, with modern data management tools such as HDF5 and SQL for a fast, scalable, and accurate PB data processing engine. This package, built around the principles of FAIR data, provides a memory safe, parallelized, and GPU accelerated environment for the analysis of particle simulations. The software currently offers 17 calculators for the computation of properties including diffusion coefficients, thermal conductivity, viscosity, radial distribution functions, coordination numbers, and more. Further, the object-oriented framework allows for the rapid implementation of new calculators or file-readers for different simulation software. The Python front-end provides a familiar interface for many users in the scientific community and a mild learning curve for the inexperienced. Future developments will include the introduction of more analysis associated with ab-initio methods, colloidal/macroscopic particle methods, and extension to experimental data.
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Kreissl P, Holm C, Weeber R. Interplay between steric and hydrodynamic interactions for ellipsoidal magnetic nanoparticles in a polymer suspension. SOFT MATTER 2023; 19:1186-1193. [PMID: 36655681 DOI: 10.1039/d2sm01428a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Magnetic nanoparticles couple to polymeric environments by several mechanisms. These include van der Waals, steric, hydrodynamic and electrostatic forces. This leads to numerous interesting effects and potential applications. Still, the details of the coupling are often unknown. In a previous work, we showed that, for spherical particles, hydrodynamic coupling alone can explain experimentally observed trends in magnetic AC susceptibility spectra [P. Kreissl, C. Holm and R. Weeber, Soft Matter, 2021, 17, 174-183]. Non-spherical, elongated particles are of interest because an enhanced coupling to the surrounding polymers is expected. In this publication we study the interplay of steric and hydrodynamic interactions between those particles and a polymer suspension. To this end, we obtain rotational friction coefficients, relaxation times for the magnetic moment, and AC susceptibility spectra, and compare these for simulations with and without hydrodynamic interactions considered. We show that, even if the particle is ellipsoidal, its hydrodynamic interactions with the surrounding polymers are much stronger than the steric ones due to the shape-anisotropy of the particle.
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Affiliation(s)
- Patrick Kreissl
- Institute for Computational Physics, University of Stuttgart, Allmandring 3, 70569 Stuttgart, Germany.
| | - Christian Holm
- Institute for Computational Physics, University of Stuttgart, Allmandring 3, 70569 Stuttgart, Germany.
| | - Rudolf Weeber
- Institute for Computational Physics, University of Stuttgart, Allmandring 3, 70569 Stuttgart, Germany.
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Magnetic Nanoparticles: Current Advances in Nanomedicine, Drug Delivery and MRI. CHEMISTRY 2022. [DOI: 10.3390/chemistry4030063] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023] Open
Abstract
Magnetic nanoparticles (MNPs) have evolved tremendously during recent years, in part due to the rapid expansion of nanotechnology and to their active magnetic core with a high surface-to-volume ratio, while their surface functionalization opened the door to a plethora of drug, gene and bioactive molecule immobilization. Taming the high reactivity of the magnetic core was achieved by various functionalization techniques, producing MNPs tailored for the diagnosis and treatment of cardiovascular or neurological disease, tumors and cancer. Superparamagnetic iron oxide nanoparticles (SPIONs) are established at the core of drug-delivery systems and could act as efficient agents for MFH (magnetic fluid hyperthermia). Depending on the functionalization molecule and intrinsic morphological features, MNPs now cover a broad scope which the current review aims to overview. Considering the exponential expansion of the field, the current review will be limited to roughly the past three years.
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Wu K, Liu J, Chugh VK, Liang S, Saha R, Krishna VD, Cheeran MCJ, Wang JP. Magnetic nanoparticles and magnetic particle spectroscopy-based bioassays: a 15 year recap. NANO FUTURES 2022; 6:022001. [PMID: 36199556 PMCID: PMC9531898 DOI: 10.1088/2399-1984/ac5cd1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Magnetic nanoparticles (MNPs) have unique physical and chemical properties, such as high surface area to volume ratio and size-related magnetism, which are completely different from their bulk materials. Benefiting from the facile synthesis and chemical modification strategies, MNPs have been widely studied for applications in nanomedicine. Herein, we firstly summarized the designs of MNPs from the perspectives of materials and physicochemical properties tailored for biomedical applications. Magnetic particle spectroscopy (MPS), first reported in 2006, has flourished as an independent platform for many biological and biomedical applications. It has been extensively reported as a versatile platform for a variety of bioassays along with the artificially designed MNPs, where the MNPs serve as magnetic nanoprobes to specifically probe target analytes from fluid samples. In this review, the mechanisms and theories of different MPS platforms realizing volumetric- and surface-based bioassays are discussed. Some representative works of MPS platforms for applications such as disease diagnosis, food safety and plant pathology monitoring, drug screening, thrombus maturity assessments are reviewed. At the end of this review, we commented on the rapid growth and booming of MPS-based bioassays in its first 15 years. We also prospected opportunities and challenges that portable MPS devices face in the rapidly growing demand for fast, inexpensive, and easy-to-use biometric techniques.
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Affiliation(s)
- Kai Wu
- Department of Electrical and Computer Engineering, University of Minnesota, Minneapolis, MN 55455, United States of America
| | - Jinming Liu
- Department of Electrical and Computer Engineering, University of Minnesota, Minneapolis, MN 55455, United States of America
| | - Vinit Kumar Chugh
- Department of Electrical and Computer Engineering, University of Minnesota, Minneapolis, MN 55455, United States of America
| | - Shuang Liang
- Department of Chemical Engineering and Materials Science, University of Minnesota, Minneapolis, MN 55455, United States of America
| | - Renata Saha
- Department of Electrical and Computer Engineering, University of Minnesota, Minneapolis, MN 55455, United States of America
| | - Venkatramana D Krishna
- Department of Veterinary Population Medicine, University of Minnesota, St Paul, MN 55108, United States of America
| | - Maxim C-J Cheeran
- Department of Veterinary Population Medicine, University of Minnesota, St Paul, MN 55108, United States of America
| | - Jian-Ping Wang
- Department of Electrical and Computer Engineering, University of Minnesota, Minneapolis, MN 55455, United States of America
- Department of Chemical Engineering and Materials Science, University of Minnesota, Minneapolis, MN 55455, United States of America
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Solovyova AY, Elfimova EA, Ivanov AO. Magnetic properties of textured ferrocomposite consisting of immobilized superparamagnetic nanoparticles. Phys Rev E 2021; 104:064616. [PMID: 35030918 DOI: 10.1103/physreve.104.064616] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Accepted: 12/09/2021] [Indexed: 06/14/2023]
Abstract
Wide use of magnetic nanoparticles in modern technologies and biomedical applications requires reliable theoretical models capable of predicting physical properties. Solidification of a ferroparticle suspension under the action of permanent magnetic field allows us to obtain a ferrocomposite, characterized by some orientational texture of the nanoparticle easy magnetization axes. The static magnetic response of this ferrocomposite differs from that of the parent magnetic suspension due to "freezing" of nanoparticle translational and rotational degrees of freedom. Here the superparamagnetic fluctuations of the nanoparticle magnetic moments play a key role in the formation of the ferrocomposite magnetic response depending on the degree of orientational ordering, obtained during synthesis of a ferrocomposite. With the help of statistical mechanics we calculate the magnetization and the initial magnetic susceptibility of the textured ferrocomposite for various temperatures and magnetic field strengths. The easy axis texturing leads to a significant increase of the magnetic properties, and the effect intensifies with the growth of nanoparticle magnetocrystalline anisotropy. Theoretical predictions are supported by Monte Carlo simulations. The obtained results evidence that the texturing of a ferroparticle suspension and transforming it into a textured ferrocomposite are a real way to enhance the magnetic response of these magnetic soft materials.
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Affiliation(s)
- Anna Yu Solovyova
- Department of Theoretical and Mathematical Physics, Institute of Nature Sciences and Mathematics, Ural Federal University, 51 Lenin Avenue, Ekaterinburg 620000, Russia
| | - Ekaterina A Elfimova
- Department of Theoretical and Mathematical Physics, Institute of Nature Sciences and Mathematics, Ural Federal University, 51 Lenin Avenue, Ekaterinburg 620000, Russia
| | - Alexey O Ivanov
- Department of Theoretical and Mathematical Physics, Institute of Nature Sciences and Mathematics, Ural Federal University, 51 Lenin Avenue, Ekaterinburg 620000, Russia
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Weeber R, Kreissl P, Holm C. Magnetic field controlled behavior of magnetic gels studied using particle-based simulations. PHYSICAL SCIENCES REVIEWS 2021. [DOI: 10.1515/psr-2019-0106] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Abstract
This contribution provides an overview of the study of soft magnetic materials using particle-based simulation models. We focus in particular on systems where thermal fluctuations are important. As a basis for further discussion, we first describe two-dimensional models which demonstrate two deformation mechanisms of magnetic gels in a homogeneous field. One is based on the change of magnetic interactions between magnetic particles as a response to an external field; the other is the result of magnetically blocked particles acting as cross-linkers. Based on the qualitative behavior directly observable in the two-dimensional models, we extend our description to three-dimensions. We begin with particle-cross-linked gels, as for those, our three-dimensional model also includes explicitly resolved polymer chains. Here, the polymer chains are represented by entropic springs, and the deformation of the gel is the result of the interaction between magnetic particles. We use this model to examine the influence of the magnetic spatial configuration of magnetic particles (uniaxial or isotropic) on the gel’s magnetomechanical behavior. A further part of the article will be dedicated to scale-bridging approaches such as systematic coarse-graining and models located at the boundary between particle-based and continuum modeling. We will conclude our article with a discussion of recent results for modeling time-dependent phenomena in magnetic-polymer composites. The discussion will be focused on a simulation model suitable for obtaining AC-susceptibility spectra for dilute ferrofluids including hydrodynamic interactions. This model will be the basis for studying the signature of particle–polymer coupling in magnetic hybrid materials. In the long run, we aim to compare material properties probed locally via the AC-susceptibility spectra to elastic moduli obtained for the system at a global level.
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Affiliation(s)
- Rudolf Weeber
- Institute for Computational Physics, University of Stuttgart , Stuttgart , Germany
| | - Patrick Kreissl
- Institute for Computational Physics, University of Stuttgart , Stuttgart , Germany
| | - Christian Holm
- Institute for Computational Physics, University of Stuttgart , Stuttgart , Germany
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