arXiv subjects

Peter Schurtenberger

Publications and source records attributed to Peter Schurtenberger.

At least 19 recordsLinked to original sources

arXiv2026

A Soft Penetrable Sphere Colloid Model for the Description of Charge and Excluded Volume Interactions in Antibody Solutions

Colloid models have frequently been used to successfully describe the influence of protein-protein interactions on antibody solution properties, but they suffer from inherent problems due to the anisotropic shape of the particles. The net charge required to describe electrostatic interactions is an effective quantity that cannot directly be obtained from the known molecular structure of an antibody, and the solution structure caused by excluded volume interactions is strongly overestimated at high concentrations due to the assumption of hard sphere interactions. As a result, these models have descriptive rather than predictive power. Here we present an improved, soft penetrable sphere model based on analogies to soft colloids and star polyelectrolytes that take into account the Y-shaped antibody form and the corresponding charge and ion distribution. The model not only correctly describes the concentration and ionic strength dependence of thermodynamic and collective dynamics quantities such as the osmotic compressibility and the apparent hydrodynamic radius, but also reproduces the center-of-mass static structure factor obtained in computer simulations using a weakly coarse-grained model, in which the antibody is described at an amino acid level. We demonstrate that this soft penetrable sphere model quantitatively reproduces experimental data from static and dynamic light scattering at low and high ionic strength for two well-characterized monoclonal antibodies (mAbs) using the net charges and the overall mAb dimensions directly obtained from their molecular structure.

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arXiv2026

Deciphering Molecular Charge Anisotropy: the Case of Antibody Solutions

Electrostatic interactions fundamentally govern the structure, stability, and dynamics of charged (bio)matter, yet the impact of heterogeneous and anisotropic charge distributions on the behavior of protein solutions remains elusive. Here, we introduce a versatile multiscale framework that directly connects molecular-level electrostatics to collective properties via a colloid-inspired coarse-grained modeling combined with neural network-assisted optimization. Using monoclonal antibodies as model system, our inverse design approach identifies charge patterns capable of reliably reproducing experimental structure factors, osmotic compressibility and collective diffusion coefficients in a wide region of protein concentrations. Close inspection of our data further uncovers how specific physical features and spatial arrangements of localized charge patches significantly influence the solution structure. This transferable strategy provides a predictive pathway to decode and control charge-driven interactions in complex biomolecules and, more generally, in heterogeneously-charged soft matter systems, with immediate relevance to protein formulation and biomaterials engineering.

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arXiv2026

Beyond uniform screening: electrostatic heterogeneity dictates solution structure of complex macromolecules

The complexity of biomolecular interactions necessitates advanced methodologies to accurately capture their behavior in solution. In this work, we focus on monoclonal antibodies and adopt a multi-scale coarse-graining strategy for their modeling, with particular emphasis on the role of electrostatic interactions. Using scattering experiments, theoretical analysis, and large-scale computer simulations, we explicitly compare two selected case studies-markedly different in their charge distributions. Through mutually corroborating lines of evidence, we demonstrate that conventional approaches relying on electrostatic screening and implicit charge representations fail to capture the structural and thermodynamic properties of antibody solutions when strong charge heterogeneity is present, even at a moderate (amino acid) level of coarse-graining. These findings highlight the importance of a correct treatment of electrostatic interactions and ion screening for heterogeneously- and oppositely-charged colloidal and protein systems. Such considerations are essential to move beyond descriptive models towards a truly predictive framework, with direct implications for the formulation of therapeutics and the treatment of other complex soft-matter systems.

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arXiv2025

Electrostatics and viscosity are strongly linked in concentrated antibody solutions

Monoclonal antibodies are among the most promising therapeutic agents in modern medicine, yet their formulation into high-concentration solutions for subcutaneous self-administration poses a major challenge. A key obstacle is the marked increase in viscosity often observed under these conditions. To gain deeper insights into this phenomenon, coarse-grained models derived from soft matter physics have been widely employed. However, these models have yet to be fully leveraged for analyzing the rheological collective properties of such systems. In this study, using molecular dynamics simulations, we directly compute the antibody solution viscosity by starting from commonly used models in which electrostatic interactions are treated through effective screened Coulomb potentials. We demonstrate that this approach fails to reproduce experimental evidence and we show, by analyzing stress correlations in the system, that it is necessary to treat the heterogeneously charged domains explicitly, also including counterions and salt ions, and to properly account for the long-ranged nature of Coulomb interactions. By thoroughly analyzing the microscopic structure of the system, we further reveal the presence of transient strongly correlated antibodies which would not be present if charges were treated implicitly, thus pointing to a prominent role of electrostatics in determining the increase in viscosity at high concentrations. By taking advantage of our realistic treatment, new approaches can be devised to ensure that antibody solutions exhibit the desired characteristics for their intended broad use and effective deployment.

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arXiv2023

Combining scattering experiments and colloid theory to characterize charge effects in concentrated antibody solutions

Charges and their contribution to protein-protein interactions are essential for the key structural and dynamic properties of monoclonal antibody (mAb) solutions. In fact, they influence the apparent molecular weight, the static structure factor, the collective diffusion coefficient or the relative viscosity and their concentration dependence. Further, charges play an important role in the colloidal stability of mAbs. There exist standard experimental tools to characterise mAb net charges such as the measurement of the electrophoretic mobility, the second virial coefficient, or the diffusion interaction parameter. However, the resulting values are difficult to be directly related to the actual overall net charge of the antibody and to theoretical predictions based on its known molecular structure. Here, we report the results of a systematic investigation of the solution properties of a charged IgG1 mAb as a function of concentration and ionic strength using a combination of electrophoretic measurements, static and dynamic light scattering, small-angle x-ray scattering (SAXS), and tracer particle-based microrheology. We analyse and interpret the experimental results using established colloid theory and coarse-grained computer simulations. We discuss the potential and limits of colloidal models for the description of interaction effects of charged mAbs, in particular pointing out the importance of incorporating shape and charge anisotropy when attempting to predict structural and dynamic solution properties at high concentrations.

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arXiv2023

Using cluster theory to calculate the experimental structure factors of antibody solutions

Monoclonal antibody solutions are set to become a major therapeutic tool in the years to come, capable of targeting various diseases by clever designing their antigen binding site. However, the formulation of stable solutions suitable for patient self-administration typically presents challenges, as a result of the increase in viscosity that often occurs at high concentrations. Here, we establish a link between the microscopic molecular details and the resulting properties of an antibody solution through the characterization of clusters, which arise in the presence of self-associating antibodies. In particular, we find that experimental small-angle X-ray scattering data can be interpreted by means of analytical models previously exploited for the study of polymeric and colloidal objects, based on the presence of such clusters. The latter are determined by theoretical calculations and supported by computer simulations of a coarse-grained minimal model, in which antibodies are treated as Y-shaped colloidal molecules and attractive domains are designed as patches. Using the theoretically-predicted cluster size distributions, we are able to describe the experimental structure factors over a wide range of concentration and salt conditions. We thus provide microscopic evidence for the well-established fact that the concentration-dependent increase in viscosity is originated by the presence of clusters. Our findings bring new insights on the self-assembly of monoclonal antibodies, which can be exploited for guiding the formulation of stable and effective antibody solutions.

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arXiv2022

Probing cage relaxation in concentrated protein solutions by XPCS

Diffusion of proteins on length scales of their own diameter in highly concentrated solutions is essential for understanding the cellular machinery of living cells, but its experimental characterization remains a challenge. While X-ray photon correlation spectroscopy (XPCS) is currently the only technique that in principle allows for a measurement of long-time collective diffusion on these length scales for such systems, its application to protein solutions is seriously hampered by radiation damage caused by the highly intense X-ray beams required for such experiments. Here we apply an experimental design and an analysis strategy that allow us to successfully use XPCS experiments in order to measure collective long-time cage relaxation in highly crowded solutions of the eye lens protein α-crystallin close to and beyond dynamical arrest. We also address the problem of radiation-induced damage in such experiments. We demonstrate that radiation effects depend both on the total dose as well as the dose rate of the absorbed radiation, and discuss possible processes and mechanism responsible for the observed radiation effects as well as their consequences for future applications of XPCS in biological systems.

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arXiv2022

Extending depolarized DLS measurements to turbid samples

The application of dynamic light scattering to soft matter systems has strongly profited from advanced approaches such as the so-called modulated 3D cross correlation technique (mod3D-DLS) that suppress contributions from multiple scattering, and can therefore be used for the characterization of turbid samples. Here we now extend the possibilities of this technique to allow for depolarized light scattering (Mod3D-DDLS) and thus obtain information on both translational and rotational diffusion, which is important for the characterization of anisotropic particles. We describe the required optical design and test the performance of the approach for increasingly turbid samples using well defined anisotropic colloidal models systems. Our measurements demonstrate that 3D-DDLS experiments can be performed successfully for samples with a reduced transmission due to multiple scattering as low as 1\%. We compare the results from this approach with those obtained by standard DDLS experiments, and point out the importance of using an appropriate optical design when performing depolarized dynamic light scattering experiments with turbid systems.

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arXiv2021

ArGSLab: A tool for analyzing experimental or simulated particle networks

Microscopy and particle-based simulations are both powerful techniques to study aggregated particulate matter such as colloidal gels. The data provided by these techniques often contains information on a wide array of length scales, but structural analysis methods typically focus on the local particle arrangement, even though the data also contains information about the particle network on the mesoscopic length scale. In this paper, we present a MATLAB software package for quantifying mesoscopic network structures in colloidal samples. ArGSLab (Arrested and Gelated Structures Laboratory) extracts a network backbone from the input data, which is in turn transformed into a set of nodes and links for graph theory-based analysis. The routines can process both image stacks from microscopy as well as explicit coordinate data, and thus allows quantitative comparison between simulations and experiments. ArGSLab furthermore enables the accurate analysis of microscopy data where, e.g., an extended point spread function prohibits the resolution of individual particles. We demonstrate the resulting output for example datasets from both microscopy and simulation of colloidal gels, in order to showcase the capability of ArGSLab to quantitatively analyze data from various sources. The freely available software package can be used either with a provided graphical user interface or directly as a MATLAB script.

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arXiv2021

Crystal-to-Crystal Transitions in Binary Mixtures of Soft Colloids

In this article, we demonstrate a method for inducing reversible crystal-to-crystal transitions in binary mixtures of soft colloidal particles. Through a controlled decrease of salinity and increasingly dominating electrostatic interactions, a single sample is shown to reversibly organize into entropic crystals, electrostatic attraction-dominated crystals or aggregated gels, which we quantify using microscopy and image analysis. We furthermore analyze crystalline structures with bond order analysis to discern between two crystal phases. We observe the different phases using a sample holder geometry that allows both in situ salinity control and imaging through Confocal Laser Scanning Microscopy, and apply a synthesis method producing particles with high resolvability in microscopy with control over particle size. The particle softness provides for an enhanced crystallization speed, while altering the re-entrant melting behavior as compared to hard sphere systems. This work thus provides several tools for use in the reproducible manufacture and analysis of binary colloidal crystals.

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arXiv2021

Using patchy particles to prevent local rearrangements in models of non-equilibrium colloidal gels

Simple models based on isotropic interparticle attractions often fail to capture experimentally observed structures of colloidal gels formed through spinodal decomposition and subsequent arrest: the resulting gels are typically denser and less branched than their experimental counterparts. Here we simulate gels formed from soft particles with directional attractions ("patchy particles"), designed to inhibit lateral particle rearrangement after aggregation. We directly compare simulated structures with experimental colloidal gels made using soft attractive microgel particles, by employing a "skeletonization" method that reconstructs the 3-dimensional backbone from experiment or simulation. We show that including directional attractions with sufficient valency leads to strongly branched structures compared to isotropic models. Furthermore, combining isotropic and directional attractions provides additional control over aggregation kinetics and gel structure. Our results show that the inhibition of lateral particle rearrangements strongly affects the gel topology, and is an important effect to consider in computational models of colloidal gels.

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arXiv2019

Modelling microgels with controlled structure across the volume phase transition

Thermoresponsive microgels are soft colloids that find widespread use as model systems for soft matter physics. Their complex internal architecture, made of a disordered and heterogeneous polymer network, has been so far a major challenge for computer simulations. In this work we put forward a coarse-grained model of microgels whose structural properties are in quantitative agreement with results obtained with small-angle X-ray scattering experiments across a wide range of temperatures, encompassing the volume phase transition. These results bridge the gap between experiments and simulations of individual microgel particles, paving the way to theoretically address open questions about their bulk properties with unprecedented nano and microscale resolution.

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arXiv2019

Reversible Formation of Thermoresponsive Binary Particle Gels with Tunable Structural and Mechanical Properties

We investigate the collective behavior of suspended thermoresponsive microgels, that expel solvent and subsequently decrease in size upon heating. Using a binary mixture of differently thermoresponsive microgels, we demonstrate how distinctly different gel structures form, depending on the heating profile used. Confocal laser scanning microscopy (CLSM) imaging shows that slow heating ramps yield a core-shell network through sequential gelation, while fast heating ramps yield a random binary network through homo-gelation. Here, secondary particles are shown to aggregate in a monolayer fashion upon the first gel, which can be qualitatively reproduced through Brownian dynamics simulations using a model based on a temperature-dependent interaction potential incorporating steric repulsion and van der Waals attraction. Through oscillatory rheology it is shown that secondary microgel deposition enhances the structural integrity of the previously formed single species gel, and the final structure exhibits higher elastic and loss moduli than its compositionally identical homo-gelled counterpart. Furthermore, we demonstrate that aging processes in the scaffold before secondary microgel deposition govern the final structural properties of the bigel, which allows a detailed control over these properties. Our results thus demonstrate how the temperature profile can be used to finely control the structural and mechanical properties of these highly tunable materials.

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arXiv2019

A new look at effective interactions between microgel particles

Thermoresponsive microgels find widespread use as colloidal model systems, because their temperature-dependent size allows facile tuning of their volume fraction "in situ". However, an interaction potential unifying their behavior across the entire phase diagram is sorely lacking. Here we investigate microgel suspensions in the fluid regime at different volume fractions and temperatures, and in the presence of another population of small microgels, combining confocal microscopy experiments and numerical simulations. We find that effective interactions between microgels are clearly temperature dependent. In addition, microgel mixtures possess an enhanced stability compared to hard colloid mixtures - a property not predicted by a simple Hertzian model. Based on numerical calculations we propose a multi-Hertzian model, which reproduces the experimental behaviour for all studied conditions. Our findings highlight that effective interactions between microgels are much more complex than usually assumed, displaying a crucial dependence on temperature and the internal core-corona architecture of the particles.

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arXiv2018

A colloid approach to self-assembling antibodies

Concentrated solutions of monoclonal antibodies have attracted considerable attention due to their importance in pharmaceutical formulations, yet their tendency to aggregate and the resulting high solution viscosity has posed considerable problems. It remains a very difficult task to understand and predict the phase behavior and stability of such solutions. Here we present a systematic study of the concentration dependence of the structural and dynamic properties of monoclonal antibodies using a combination of different scattering methods and microrheological experiments. To interpret these data, we use a colloid-inspired approach based on a simple patchy model, which explicitly takes into account the anisotropic shape and the charge distribution of the molecules. Combining theory, simulations and experiments, we are able to disentangle self-assembly and intermolecular interactions and to quantitatively describe the concentration dependence of structural and dynamic quantities such as the osmotic compressibility, the collective diffusion coefficient and the zero shear viscosity over the entire range of investigated concentrations. This simple patchy model not only allows us to consistently describe the thermodynamic and dynamic behavior of mAb solutions, but also provides a robust estimate of the attraction between their binding sites. It will thus be an ideal starting point for future work on antibody formulations, as it provides a quantitative assessment of the effects of additional excipients or chemical modifications on antibody interactions, and a prediction of their effect on solution viscosity.

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arXiv2017

Directed Self-Assembly of Polarizable Ellipsoids in an External Electric Field

The interplay between shape anisotropy and directed long-range interactions enables the self-assembly of complex colloidal structures. As a recent highlight, ellipsoidal particles polarized in an external electric field were observed to associate into well-defined tubular structures. In this study, we investigate systematically such directed self-assembly using Monte Carlo simulations of a two-point-charge model of polarizable prolate ellipsoids. In spite of its simplicity and computational efficiency, we demonstrate that the model is capable of capturing the complex structures observed in experiments on ellipsoidal colloids at low volume fractions. We show that, at sufficiently high electric field strength, the anisotropy in shape and electrostatic interactions causes a transition from 3-dimensional crystal structures observed at low aspect ratios to 2-dimensional sheets and tubes at higher aspect ratios. Our work thus illustrates the rich self-assembly behavior accessible when exploiting the interplay between competing long- and short-range anisotropic interactions in colloidal systems.

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arXiv2017

Contrasting the dynamics of elastic and non-elastic deformations across an experimental colloidal Martensitic transition

We present a framework to segregate the roles of elastic and non-elastic deformations in the examination of real-space experiments of solid-solid Martensitic transitions. The Martensitic transformation of a body-centred-tetragonal(BCT) to a body-centred-orthorhombic(BCO) crystal structure has been studied in a model system of micron-scale ionic microgel colloids. Non-affine fluctuations, i.e., displacement fluctuations that do not arise from purely elastic(affine) deformations, are detected in particle configurations acquired from the experiment. Tracking these fluctuations serves as a highly sensitive tool in signaling the onset of the Martensitic transition and precisely locating particle rearrangements occurring at length scales of a few particle diameters. Particle rearrangements associated with non-affine displacement modes become increasingly favorable during the transformation process. The nature of the displacement fluctuation modes that govern the transformation are shown to be different from those predominant in an equilibrium crystal. We show that BCO crystallites formed through shear may, remarkably, co-exist with those resulting from local rearrangements within the same sample.

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arXiv2015

Superresolution Microscopy of the Volume Phase Transition of pNIPAM Microgels

Hierarchical polymer structures such as pNIPAM microgels have been extensively studied for their ability to undergo significant structural and physical transformations that can be controlled by external stimuli such as temperature, pH or solvent composition. However, direct three-dimensional visualization of individual particles in situ have so far been hindered by insufficient resolution, with optical microscopy, or contrast, with electron microscopy. In recent years superresolution microscopy techniques have emerged that in principle can provide nanoscopic optical resolution. Here we report on the in-situ superresolution microscopy of dye-labeled submicron sized pNIPAM microgels revealing the internal microstructure during swelling and collapse of individual particles. Using direct STochastic Optical Reconstruction Microscopy (dSTORM) we demonstrate a lateral optical resolution of 30nm and an axial resolution of 60nm.

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