arXiv subjects

Daniel Razansky

Publications and source records attributed to Daniel Razansky.

At least 19 recordsLinked to original sources

arXiv2026

Validation of a Software-Defined 100-Gb/s RDMA Streaming Architecture for Ultrafast Optoacoustic and Ultrasound Imaging

Optoacoustic (OA) imaging has emerged as a powerful investigation tool, with demonstrated applicability in oncology, neuroscience, and cardiovascular biology. However, its clinical translation is limited with the existing OA systems, which often rely on bulky and expensive acquisition hardware mainly optimized for pulse-echo ultrasound (US) imaging. Despite the fact that OA imaging has different requirements for receive bandwidths and timing synchronization with external laser sources, there is a strong need for unified OA-US imaging platforms, as pulse-echo US remains the standard tool for visualizing soft tissues. To address these challenges, we propose a new data acquisition architecture for ultrafast OA and US imaging that fully covers the requirements for large channel counts, wide bandwidth, and software-defined operation. LtL combines state-of-the-art wideband analog front-ends, a Zynq UltraScale+ MPSoC integrating FPGA fabric with an Application Processing Unit, and a 100 GbE Remote Direct Memory Access (RDMA) backend enabling raw-data streaming at up to 95.6 Gb/s. The architecture avoids local buffers followed by burst transfers, which commonly constrain sustainable frame rate and recording intervals, thus achieving true continuous and sustained streaming of raw data. We validate the core elements of the LtL architecture using a 16-channel demonstration system built from commercial evaluation boards. We further verify the signal chain for up to 256-channel scalability, confirming the wide bandwidth capabilities to support state-of-the-art data transmission speeds.

eess.SY↗

arXiv2024

Simulation-Based Segmentation of Blood Vessels in Cerebral 3D OCTA Images

Segmentation of blood vessels in murine cerebral 3D OCTA images is foundational for in vivo quantitative analysis of the effects of neurovascular disorders, such as stroke or Alzheimer's, on the vascular network. However, to accurately segment blood vessels with state-of-the-art deep learning methods, a vast amount of voxel-level annotations is required. Since cerebral 3D OCTA images are typically plagued by artifacts and generally have a low signal-to-noise ratio, acquiring manual annotations poses an especially cumbersome and time-consuming task. To alleviate the need for manual annotations, we propose utilizing synthetic data to supervise segmentation algorithms. To this end, we extract patches from vessel graphs and transform them into synthetic cerebral 3D OCTA images paired with their matching ground truth labels by simulating the most dominant 3D OCTA artifacts. In extensive experiments, we demonstrate that our approach achieves competitive results, enabling annotation-free blood vessel segmentation in cerebral 3D OCTA images.

eess.IV↗

arXiv2024

Copper phosphate micro-flowers coated with indocyanine green and iron oxide nanoparticles for in vivo localization optoacoustic tomography and magnetic actuation

Efficient drug delivery is a major challenge in modern medicine and pharmaceutical research. Micrometer-scale robots have recently been proposed as a promising venue to amplify precision of drug administration. Remotely controlled microrobots sufficiently small to navigate through microvascular networks can reach any part of the human body, yet real-time tracking is crucial for providing precise guidance and verifying successful arrival at the target. In vivo deep-tissue monitoring of individual microrobots is currently hampered by the lack of sensitivity and/or spatio-temporal resolution of commonly used clinical imaging modalities. We synthesized biocompatible and biodegradable copper phosphate micro-flowers loaded with indocyanine green and iron oxide nanoparticles to enable in vivo individual detection with localization optoacoustic tomography. We demonstrate magnetic actuation and optoacoustic tracking of these decorated micro-flowers at a per-particle level. Functional super-resolution imaging achieved via tracking intravenously injected particles provides a means of identifying microvascular targets and quantifying blood flow, while the versatile carrying capacity can be further exploited for transporting multiple types of drug formulations.

physics.optics↗

arXiv2023

Influence of shear waves on transcranial ultrasound propagation in cortical brain regions

Transcranial ultrasound applications require accurate simulations to predict intracranial acoustic pressure fields. The current gold standard typically consists of calculating a longitudinal ultrasound wave propagation using a fluid skull model, which is based on full head CT images for retrieving the skull's geometry and elastic constants. Although this approach has extensively been validated for deep brain targets and routinely used in transcranial ultrasound ablation procedures, its accuracy in shallow cortical regions remains unexplored. In this study, we explore the shear wave effects associated with transcranial focused ultrasound propagation, both numerically and experimentally. The intracranial acoustic pressure was measured at different incidence angles at the parietal and frontal regions in an ex vivo human skull. The fluid-like skull model was then compared to the solid model comprising both longitudinal and shear waves. The results consistently show a larger error and variability for both models when considering an oblique incidence, reaching a maximum of 125% mean deviation of the focal area when employing the fluid skull model. Statistical assessments further revealed that ignoring shear waves results in an average ~40% overestimation of the intracranial acoustic pressure and inability to obtain an accurate intracranial acoustic pressure distribution. Moreover, the solid model has a more stable performance, even when small variations in the skull-transducer relative position are introduced. Our results could contribute to the refinement of the transcranial ultrasound propagation modeling methods thus help improving the safety and outcome of transcranial ultrasound therapy in the cortical brain areas.

physics.med-ph↗

arXiv2023

Multi-scale volumetric dynamic optoacoustic and laser ultrasound (OPLUS) imaging enabled by semi-transparent optical guidance

Major biological discoveries have been made by interrogating living organisms with light. However, the limited penetration of unscattered photons within biological tissues severely limits the depth range covered by optical methods. Deep-tissue imaging has been achieved by combining light and ultrasound. Optoacoustic imaging uniquely exploits optical generation of ultrasound to render high-resolution images at depths unattainable with optical microscopy. Recently, laser ultrasound has further been suggested as a means of generating broadband acoustic waves for high-resolution pulse-echo ultrasound imaging. Herein, we propose an approach to simultaneously interrogate biological tissues with light and ultrasound based on layer-by-layer coating of silica optical fibers with a controlled degree of transparency. We exploit the time separation between optoacoustic signals and ultrasound echoes collected with a custom-made spherical array transducer for simultaneous three-dimensional optoacoustic and laser ultrasound (OPLUS) imaging with a single laser pulse. OPLUS is shown to enable large-scale comprehensive anatomical characterization of tissues along with functional multi-spectral imaging of spectrally-distinctive chromophores and assessment of cardiac dynamics at ultrafast rates only limited by the pulse repetition frequency of the laser. The suggested approach provides a flexible and scalable means for developing a new generation of systems synergistically combining the powerful capabilities of optoacoustics and ultrasound imaging in biology and medicine.

physics.optics↗

arXiv2022

OADAT: Experimental and Synthetic Clinical Optoacoustic Data for Standardized Image Processing

Optoacoustic (OA) imaging is based on excitation of biological tissues with nanosecond-duration laser pulses followed by subsequent detection of ultrasound waves generated via light-absorption-mediated thermoelastic expansion. OA imaging features a powerful combination between rich optical contrast and high resolution in deep tissues. This enabled the exploration of a number of attractive new applications both in clinical and laboratory settings. However, no standardized datasets generated with different types of experimental set-up and associated processing methods are available to facilitate advances in broader applications of OA in clinical settings. This complicates an objective comparison between new and established data processing methods, often leading to qualitative results and arbitrary interpretations of the data. In this paper, we provide both experimental and synthetic OA raw signals and reconstructed image domain datasets rendered with different experimental parameters and tomographic acquisition geometries. We further provide trained neural networks to tackle three important challenges related to OA image processing, namely accurate reconstruction under limited view tomographic conditions, removal of spatial undersampling artifacts and anatomical segmentation for improved image reconstruction. Specifically, we define 44 experiments corresponding to the aforementioned challenges as benchmarks to be used as a reference for the development of more advanced processing methods.

eess.IV↗

arXiv2021

Deep learning facilitates fully automated brain image registration of optoacoustic tomography and magnetic resonance imaging

Multi-spectral optoacoustic tomography (MSOT) is an emerging optical imaging method providing multiplex molecular and functional information from the rodent brain. It can be greatly augmented by magnetic resonance imaging (MRI) that offers excellent soft-tissue contrast and high-resolution brain anatomy. Nevertheless, registration of multi-modal images remains challenging, chiefly due to the entirely different image contrast rendered by these modalities. Previously reported registration algorithms mostly relied on manual user-dependent brain segmentation, which compromised data interpretation and accurate quantification. Here we propose a fully automated registration method for MSOT-MRI multimodal imaging empowered by deep learning. The automated workflow includes neural network-based image segmentation to generate suitable masks, which are subsequently registered using an additional neural network. Performance of the algorithm is showcased with datasets acquired by cross-sectional MSOT and high-field MRI preclinical scanners. The automated registration method is further validated with manual and half-automated registration, demonstrating its robustness and accuracy.

eess.IV↗

arXiv2021

High resolution transcranial imaging based on the optoacoustic memory effect

Acoustic impedance mismatches between soft tissues and bones are known to result in strong aberrations in optoacoustic and ultrasound images. Of particular importance are the severe distortions introduced by the human skull, impeding transcranial brain imaging with these modalities. While modelling of ultrasound propagation through the skull may in principle help correcting for some of the skull-induced aberrations, these approaches are commonly challenged by the highly heterogeneous and dispersive acoustic properties of the skull and lack of exact knowledge on its geometry and internal structure. Here we demonstrate that the spatio-temporal properties of the acoustic distortions induced by the skull are preserved for signal sources generated at neighboring intracranial locations by means of optoacoustic excitation. This optoacoustic memory effect is exploited for building a three-dimensional model accurately describing the generation, propagation and detection of time-resolved broadband optoacoustic waveforms traversing the skull. The memory-based model-based inversion is then shown to accurately recover the optical absorption distribution inside the skull with spatial resolution and image quality comparable to those attained in skull-free medium.

physics.med-ph↗

arXiv2021

High order pulse-echo (HOPE) ultrasound

Multiple reflections between transducer and imaged object can naturally occur in ultrasound imaging and other acoustic sensing applications such as sonar. The repeated interaction of the emitted wavefront with the imaged object is traditionally regarded an undesired reverberation artifact, often misinterpreted as fictitious acoustic boundaries. Here we introduce high order reflection pulse-echo (HOPE)-ultrasound, a novel method that leverages high order reflections to improve on several aspects of conventional ultrasound imaging. HOPE is experimentally demonstrated to resolve sub-micrometer features by breaking through the Nyquist resolution limit. The major contrast enhancement of the high reflection orders allowed to reveal defects within materials invisible to conventional scanning acoustic microscopy. The technique is further shown to improve accuracy of frequency-dependent ultrasound attenuation measurements from biological tissues. HOPE ultrasound requires no additional hardware and is easy to implement, underscoring its potential to boost imaging performance in a broad range of biomedical imaging, nondestructive testing, and other acoustic sensing applications.

physics.app-ph↗

arXiv2021

Dual-Mode Volumetric Optoacoustic and Contrast Enhanced Ultrasound Imaging with Spherical Matrix Arrays

Spherical matrix arrays arguably represent an advantageous tomographic detection geometry for non-invasive deep tissue mapping of vascular networks and oxygenation with volumetric optoacoustic tomography (VOT). Hybridization of VOT with ultrasound (US) imaging remains difficult with this configuration due to the relatively large inter-element pitch of spherical arrays. We suggest a new approach for combining VOT and US contrast-enhanced imaging employing injection of clinically-approved microbubbles. Power Doppler (PD) and US localization imaging were enabled with a sparse US acquisition sequence and model-based inversion based on infimal convolution of total variation (ICTV) regularization. Experiments in tissue-mimicking phantoms and in vivo in mice demonstrate the powerful capabilities of the new dual-mode imaging system for blood velocity mapping and anatomical imaging with enhanced resolution and contrast.

physics.med-ph↗

arXiv2020

Broadband model-based inversion enables optoacoustic microscopy beyond the acoustic diffraction limit

Acoustic-resolution optoacoustic microscopy (AR-OAM) retrieves anatomical and functional contrast from living tissues at depths not reachable with optical microscopy. The imaging performance of AR-OAM has been advanced with image reconstruction algorithms providing high lateral resolution ultimately limited by acoustic diffraction. In this work, we suggest a new model-based framework efficiently exploiting scanning symmetries for high-resolution reconstruction of AR-OAM images. The model accurately accounts for the spatial impulse response and large detection bandwidth of a spherical polyvinylidene difluoride sensor, which facilitates significantly outperforming synthetic aperture focusing technique commonly employed in AR-OAM image reconstruction in terms of image contrast and resolution. Furthermore, reconstructions based on L1-norm regularization enabled resolving structures indistinguishable with other methods, which was confirmed by numerical simulations as well as phantom and in vivo experiments. The achieved performance demonstrates the applicability of AR-OAM as a super-resolution imaging method capable of breaking through the limits imposed by acoustic diffraction, thus opening unprecedented capabilities for the microscopic interrogation of optically opaque tissues in preclinical and clinical studies.

physics.med-ph↗

arXiv2020

Noninvasive three-dimensional optoacoustic localization microangiography of deep tissues

Structural microvascular alterations and dysfunction serve as key disease indicators of cancer, diabetes, ischemic stroke, neurodegenerative disorders and many other conditions. In vivo visualization of the microvasculature has traditionally been restricted to millimeter scale depths accessible with optical microscopy. Optoacoustic imaging has enabled breaking through the barrier imposed by light diffusion to map functional hemodynamic parameters in deep-seated vessels, but diffraction and dispersion of ultrasound waves in heterogeneous living tissues prevents reaching capillary resolution. Herein, we demonstrate three-dimensional microangiography of deep mouse brain beyond the acoustic diffraction limit (<20$\mu$m resolution) through the intact scalp and skull via optoacoustic localization of sparsely-distributed highly absorbing microparticles. This was enabled by devising 5$\mu$m sized extremely absorbing dichloromethane microdroplets exhibiting four orders of magnitude higher optical absorption than red blood cells at near-infrared wavelengths, thus facilitating in vivo compatibility and single particle sensitivity in the presence of highly absorbing blood background. Accurate mapping of the blood flow velocity within microvascular structures was also facilitated by the high 3D frame rate of the optoacoustic tomography system. We further show that the detected optoacoustic signal intensities from the localized particles may serve for estimating the light fluence distribution within optically heterogeneous tissues, a long-standing quantification challenge in biomedical optics. Given the intrinsic sensitivity of optoacoustics to various functional, metabolic and molecular events in living tissues, this new approach paves the way for non-invasive deep-tissue microscopic observations with unrivaled resolution, contrast and speed.

physics.bio-ph↗

arXiv2019

Acoustic scattering mediated single detector optoacoustic tomography

Optoacoustic image formation is conventionally based upon ultrasound time-of-flight readings from multiple detection positions. Herein, we exploit acoustic scattering to physically encode the position of optical absorbers in the acquired signals, thus reduce the amount of data required to reconstruct an image from a single waveform. This concept is experimentally tested by including a random distribution of scatterers between the sample and an ultrasound detector array. Ultrasound transmission through a randomized scattering medium was calibrated by raster scanning a light-absorbing microparticle across a Cartesian grid. Image reconstruction from a single time-resolved signal was then enabled with a regularized model-based iterative algorithm relying on the calibration signals. The signal compression efficiency is facilitated by the relatively short acquisition time window needed to capture the entire scattered wavefield. The demonstrated feasibility to form an image using a single recorded optoacoustic waveform paves a way to the development of faster and affordable optoacoustic imaging systems.

physics.bio-ph↗

arXiv2019

Sub-micron silicon-on-insulator resonator for ultrasound detection

Point-like broadband ultrasound detection can significantly increase the resolution of ultrasonography and optoacoustic (photoacoustic) imaging, yet current ultrasound detectors cannot be miniaturised sufficiently. Piezoelectric transducers lose sensitivity quadratically with size reduction, while optical micro-ring resonators and Fabry-P\'erot etalons fail to adequately confine light at dimensions smaller than $\sim$ 50 microns. Micromachining methods have been used to generate arrays of capacitive and piezoelectric transducers, but at bandwidths of only a few MHz and dimensions not smaller than 70 microns. Here we use the widely available silicon-on-insulator (SOI) platform to develop the worlds smallest ultrasound detector with a sub-micron sensing area of 220 $\times$ 500 nanometers. The SOI-based optical resonator design can provide per-area sensitivity that is $10^{4}$-fold higher than for micro-ring resonators and $10^{8}$-fold higher than for piezoelectric detectors. We also demonstrate ultra-wide bandwidth reaching 230 MHz and conduct the first imaging based on an SOI ultrasound detector. The technology showcased is suitable for manufacturing ultra-dense detector arrays ($\geq125$ $detectors\backslash mm^{2}$), which have the potential to revolutionise ultrasonography and optoacoustic imaging.

physics.app-ph↗

arXiv2018

Observation of guided acoustic waves in a human skull

Human skull poses a significant barrier for the propagation of ultrasound waves. Development of methods enabling more efficient ultrasound transmission into and from the brain is therefore critical for the advancement of ultrasound-mediated transcranial imaging or actuation techniques. We report on the first observation of guided acoustic waves in the near-field of an ex vivo human skull specimen in the frequency range between 0.2 and 1.5 MHz. In contrast to what was previously observed for the guided wave propagation in thin rodent skulls, the guided wave observed in a higher frequency regime corresponds to a quasi-Rayleigh wave, mostly confined to the cortical bone layer. The newly discovered near-field properties of the human skull are expected to facilitate the development of more efficient diagnostic and therapeutic techniques based on transcranial ultrasound.

physics.med-ph↗

arXiv2017

Maximum entropy based non-negative optoacoustic tomographic image reconstruction

Objective:Optoacoustic (photoacoustic) tomography is aimed at reconstructing maps of the initial pressure rise induced by the absorption of light pulses in tissue. In practice, due to inaccurate assumptions in the forward model, noise and other experimental factors, the images are often afflicted by artifacts, occasionally manifested as negative values. The aim of the work is to develop an inversion method which reduces the occurrence of negative values and improves the quantitative performance of optoacoustic imaging. Methods: We present a novel method for optoacoustic tomography based on an entropy maximization algorithm, which uses logarithmic regularization for attaining non-negative reconstructions. The reconstruction image quality is further improved using structural prior based fluence correction. Results: We report the performance achieved by the entropy maximization scheme on numerical simulation, experimental phantoms and in-vivo samples. Conclusion: The proposed algorithm demonstrates superior reconstruction performance by delivering non-negative pixel values with no visible distortion of anatomical structures. Significance: Our method can enable quantitative optoacoustic imaging, and has the potential to improve pre-clinical and translational imaging applications.

physics.med-ph↗

arXiv2017

Localization optoacoustic tomography

Localization-based imaging has revolutionized fluorescence optical microscopy and has also enabled unprecedented ultrasound images of microvascular structures in deep tissues. Herein, we introduce a new concept of localization optoacoustic tomography (LOAT) that employs rapid sequential acquisition of three-dimensional optoacoustic images from flowing absorbing particles. We show that the new method enables breaking through the spatial resolution barrier of acoustic diffraction while further enhancing the visibility of structures under limited-view tomographic conditions. Given the intrinsic sensitivity of optoacoustics to multiple hemodynamic and oxygenation parameters, LOAT may enable new level of performance in studying functional and anatomical alterations of microcirculation.

physics.optics↗

arXiv2016

Prediction and near-field observation of skull-guided acoustic waves

Ultrasound waves propagating in water or soft biological tissue are strongly reflected when encountering the skull, which limits the use of ultrasound-based techniques in transcranial imaging and therapeutic applications. Current knowledge on the acoustic properties of the cranial bone is restricted to far-field observations, leaving its near-field properties unexplored. We report on the existence of skull-guided acoustic waves, which was herein confirmed by near-field measurements of optoacoustically-induced responses in ex-vivo murine skulls immersed in water. Dispersion of the guided waves was found to reasonably agree with the prediction of a multilayered flat plate model. It is generally anticipated that our findings may facilitate and broaden the application of ultrasound-mediated techniques in brain diagnostics and therapy.

physics.med-ph↗