Enhancing Compressed Sensing 4D Photoacoustic Tomography by Simultaneous Motion Estimation

A crucial limitation of current high-resolution 3D photoacoustic tomography (PAT) devices that employ sequential scanning is their long acquisition time. In previous work, we demonstrated how to use compressed sensing techniques to improve upon this: images with good spatial resolution and contrast can be obtained from suitably sub-sampled PAT data acquired by novel acoustic scanning systems if sparsity-constrained image reconstruction techniques such as total variation regularization are used. Now, we show how a further increase of image quality can be achieved for imaging dynamic processes in living tissue (4D PAT). The key idea is to exploit the additional temporal redundancy of the data by coupling the previously used spatial image reconstruction models with sparsity-constrained motion estimation models. While simulated data from a two-dimensional numerical phantom will be used to illustrate the main properties of this recently developed joint-image-reconstruction-and-motion-estimation framework, measured data from a dynamic experimental phantom will also be used to demonstrate their potential for challenging, large-scale, real-world, three-dimensional scenarios. The latter only becomes feasible if a carefully designed combination of tailored optimization schemes is employed, which we describe and examine in more detail

Tempo and mode of performance evolution across multiple independent origins of adhesive toe pads in lizards

Understanding macroevolutionary dynamics of trait evolution is an important endeavor in evolutionary biology. Ecological opportunity can liberate a trait as it diversifies through trait space, while genetic and selective constraints can limit diversification. While many studies have examined the dynamics of morphological traits, diverse morphological traits may yield the same or similar performance and as performance is often more proximately the target of selection, examining only morphology may give an incomplete understanding of evolutionary dynamics. Here, we ask whether convergent evolution of pad‐bearing lizards has followed similar evolutionary dynamics, or whether independent origins are accompanied by unique constraints and selective pressures over macroevolutionary time. We hypothesized that geckos and anoles each have unique evolutionary tempos and modes. Using performance data from 59 species, we modified Brownian motion (BM) and Ornstein–Uhlenbeck (OU) models to account for repeated origins estimated using Bayesian ancestral state reconstructions. We discovered that adhesive performance in geckos evolved in a fashion consistent with Brownian motion with a trend, whereas anoles evolved in bounded performance space consistent with more constrained evolution (an Ornstein–Uhlenbeck model). Our results suggest that convergent phenotypes can have quite distinctive evolutionary patterns, likely as a result of idiosyncratic constraints or ecological opportunities

Reducing “Structure from Motion”: a general framework for dynamic vision. 1. Modeling

The literature on recursive estimation of structure and motion from monocular image sequences comprises a large number of apparently unrelated models and estimation techniques. We propose a framework that allows us to derive and compare all models by following the idea of dynamical system reduction. The “natural” dynamic model, derived from the rigidity constraint and the projection model, is first reduced by explicitly decoupling structure (depth) from motion. Then, implicit decoupling techniques are explored, which consist of imposing that some function of the unknown parameters is held constant. By appropriately choosing such a function, not only can we account for models seen so far in the literature, but we can also derive novel ones

InferenceMAP: Mapping of Single-Molecule Dynamics with Bayesian Inference

Single-particle tracking (SPT) grants unprecedented insight into cellular function at the molecular scale [1]. Throughout the cell, the movement of single-molecules is generally heterogeneous and complex. Hence, there is an imperative to understand the multi-scale nature of single-molecule dynamics in biological systems. We have previously shown that with high-density SPT, spatial maps of the parameters that dictate molecule motion can be generated to intricately describe cellular environments [2,3,4]. To date, however, there exist no publically available tools that reconcile trajectory data to generate the aforementioned maps. We address this void in the SPT community with InferenceMAP: an interactive software package that uses a powerful Bayesian method to map the dynamic cellular space experienced by individual biomolecules.Comment: 56 page

A new probe of the small-scale primordial power spectrum: astrometric microlensing by ultracompact minihalos

The dark matter enclosed in a density perturbation with a large initial amplitude (delta-rho/rho > 1e-3) collapses shortly after recombination and forms an ultracompact minihalo (UCMH). Their high central densities make UCMHs especially suitable for detection via astrometric microlensing: as the UCMH moves, it changes the apparent position of background stars. A UCMH with a mass larger than a few solar masses can produce a distinctive astrometric microlensing signal that is detectable by the space astrometry mission Gaia. If Gaia does not detect gravitational lensing by any UCMHs, then it establishes an upper limit on their abundance and constrains the amplitude of the primordial power spectrum for k~2700 Mpc^{-1}. These constraints complement the upper bound on the amplitude of the primordial power spectrum derived from limits on gamma-ray emission from UCMHs because the astrometric microlensing signal produced by an UCMH is maximized if the dark-matter annihilation rate is too low to affect the UCMH's density profile. If dark matter annihilation within UCMHs is not detectable, a search for UCMHs by Gaia could constrain the amplitude of the primordial power spectrum to be less than 1e-5; this bound is three orders of magnitude stronger than the bound derived from the absence of primordial black holes.Comment: 17 pages, 6 figures, references added and minor changes made to match version published in PR

Accelerated Cardiac Diffusion Tensor Imaging Using Joint Low-Rank and Sparsity Constraints

Objective: The purpose of this manuscript is to accelerate cardiac diffusion tensor imaging (CDTI) by integrating low-rankness and compressed sensing. Methods: Diffusion-weighted images exhibit both transform sparsity and low-rankness. These properties can jointly be exploited to accelerate CDTI, especially when a phase map is applied to correct for the phase inconsistency across diffusion directions, thereby enhancing low-rankness. The proposed method is evaluated both ex vivo and in vivo, and is compared to methods using either a low-rank or sparsity constraint alone. Results: Compared to using a low-rank or sparsity constraint alone, the proposed method preserves more accurate helix angle features, the transmural continuum across the myocardium wall, and mean diffusivity at higher acceleration, while yielding significantly lower bias and higher intraclass correlation coefficient. Conclusion: Low-rankness and compressed sensing together facilitate acceleration for both ex vivo and in vivo CDTI, improving reconstruction accuracy compared to employing either constraint alone. Significance: Compared to previous methods for accelerating CDTI, the proposed method has the potential to reach higher acceleration while preserving myofiber architecture features which may allow more spatial coverage, higher spatial resolution and shorter temporal footprint in the future.Comment: 11 pages, 16 figures, published on IEEE Transactions on Biomedical Engineerin