Anisotropic dynamics of a self-assembled colloidal chain in an active bath

Anisotropic macromolecules exposed to non-equilibrium (active) noise are very common in biological systems, and an accurate understanding of their anisotropic dynamics is therefore crucial. Here, we experimentally investigate the dynamics of isolated chains assembled from magnetic microparticles at a liquid-air interface and moving in an active bath consisting of motile E. coli bacteria. We investigate both the internal chain dynamics and the anisotropic center-of-mass dynamics through particle tracking. We find that both the internal and center-of-mass dynamics are greatly enhanced compared to the passive case, i.e., a system without bacteria, and that the center-of-mass diffusion coefficient $D$ features a non-monotonic dependence as a function of the chain length. Furthermore, our results show that the relationship between the components of $D$ parallel and perpendicular with respect to the direction of the applied magnetic field is preserved in the active bath compared to the passive case, with a higher diffusion in the parallel direction, in contrast to previous findings in the literature. We argue that this qualitative difference is due to subtle differences in the experimental geometry and conditions and the relative roles played by long-range hydrodynamic interactions and short-range collisions

Simultaneous use of Individual and Joint Regularization Terms in Compressive Sensing: Joint Reconstruction of Multi-Channel Multi-Contrast MRI Acquisitions

Purpose: A time-efficient strategy to acquire high-quality multi-contrast images is to reconstruct undersampled data with joint regularization terms that leverage common information across contrasts. However, these terms can cause leakage of uncommon features among contrasts, compromising diagnostic utility. The goal of this study is to develop a compressive sensing method for multi-channel multi-contrast magnetic resonance imaging (MRI) that optimally utilizes shared information while preventing feature leakage. Theory: Joint regularization terms group sparsity and colour total variation are used to exploit common features across images while individual sparsity and total variation are also used to prevent leakage of distinct features across contrasts. The multi-channel multi-contrast reconstruction problem is solved via a fast algorithm based on Alternating Direction Method of Multipliers. Methods: The proposed method is compared against using only individual and only joint regularization terms in reconstruction. Comparisons were performed on single-channel simulated and multi-channel in-vivo datasets in terms of reconstruction quality and neuroradiologist reader scores. Results: The proposed method demonstrates rapid convergence and improved image quality for both simulated and in-vivo datasets. Furthermore, while reconstructions that solely use joint regularization terms are prone to leakage-of-features, the proposed method reliably avoids leakage via simultaneous use of joint and individual terms. Conclusion: The proposed compressive sensing method performs fast reconstruction of multi-channel multi-contrast MRI data with improved image quality. It offers reliability against feature leakage in joint reconstructions, thereby holding great promise for clinical use.Comment: 13 pages, 13 figures. Submitted for possible publicatio

DEQ-MPI: A Deep Equilibrium Reconstruction with Learned Consistency for Magnetic Particle Imaging

Magnetic particle imaging (MPI) offers unparalleled contrast and resolution for tracing magnetic nanoparticles. A common imaging procedure calibrates a system matrix (SM) that is used to reconstruct data from subsequent scans. The ill-posed reconstruction problem can be solved by simultaneously enforcing data consistency based on the SM and regularizing the solution based on an image prior. Traditional hand-crafted priors cannot capture the complex attributes of MPI images, whereas recent MPI methods based on learned priors can suffer from extensive inference times or limited generalization performance. Here, we introduce a novel physics-driven method for MPI reconstruction based on a deep equilibrium model with learned data consistency (DEQ-MPI). DEQ-MPI reconstructs images by augmenting neural networks into an iterative optimization, as inspired by unrolling methods in deep learning. Yet, conventional unrolling methods are computationally restricted to few iterations resulting in non-convergent solutions, and they use hand-crafted consistency measures that can yield suboptimal capture of the data distribution. DEQ-MPI instead trains an implicit mapping to maximize the quality of a convergent solution, and it incorporates a learned consistency measure to better account for the data distribution. Demonstrations on simulated and experimental data indicate that DEQ-MPI achieves superior image quality and competitive inference time to state-of-the-art MPI reconstruction methods

TranSMS: Transformers for Super-Resolution Calibration in Magnetic Particle Imaging

Magnetic particle imaging (MPI) offers exceptional contrast for magnetic nanoparticles (MNP) at high spatio-temporal resolution. A common procedure in MPI starts with a calibration scan to measure the system matrix (SM), which is then used to set up an inverse problem to reconstruct images of the MNP distribution during subsequent scans. This calibration enables the reconstruction to sensitively account for various system imperfections. Yet time-consuming SM measurements have to be repeated under notable changes in system properties. Here, we introduce a novel deep learning approach for accelerated MPI calibration based on Transformers for SM super-resolution (TranSMS). Low-resolution SM measurements are performed using large MNP samples for improved signal-to-noise ratio efficiency, and the high-resolution SM is super-resolved via model-based deep learning. TranSMS leverages a vision transformer module to capture contextual relationships in low-resolution input images, a dense convolutional module for localizing high-resolution image features, and a data-consistency module to ensure measurement fidelity. Demonstrations on simulated and experimental data indicate that TranSMS significantly improves SM recovery and MPI reconstruction for up to 64-fold acceleration in two-dimensional imaging

Joint reconstruction of multi-contrast images: compressive sensing reconstruction using both joint and individual regularization functions

In many clinical settings, multi-contrast images of a patient are acquired to maximize complementary information. With the underlying anatomy being the same, the mutual information in multi-contrast data can be exploited to improve image reconstruction, especially in accelerated acquisition schemes such as Compressive Sensing (CS). This study proposes a CS-reconstruction algorithm that uses four regularization functions; joint L1-sparsity and TV-regularization terms to exploit the mutual information, and individual L1-sparsity and TV-regularization terms to recover unique features in each image. The proposed method is shown to be robust against leakage-of-features across contrasts, and is demonstrated using simulations and in-vivo experiments