A sensor pixel integrates optical intensity across its extent, and we explore the role that this integration plays in phase space tomography. The literature is inconsistent in its treatment of this integration—some approaches model this integration explicitly, some approaches are ambiguous about whether this integration is taken into account, and still some approaches assume pixel values to be point samples of the optical intensity. We show that making a point-sample assumption results in apodization of and thus systematic error in the recovered ambiguity function, leading to underestimating the overall degree of coherence. We explore the severity of this effect using a Gaussian Schell-model source and discuss when this effect, as opposed to noise, is the dominant source of error in the retrieved state of coherence.

The mutual intensity and its equivalent phase-space representations quantify an optical field's state of coherence and are important tools in the study of light propagation and dynamics, but they can only be estimated indirectly from measurements through a process called coherence retrieval, otherwise known as phase-space tomography. As practical considerations often rule out the availability of a complete set of measurements, coherence retrieval is usually a challenging high-dimensional ill-posed inverse problem. In this paper, we propose a trace-regularized optimization model for coherence retrieval and a provably convergent adaptive accelerated proximal gradient algorithm for solving the resulting problem. Applying our model and algorithm to both simulated and experimental data, we demonstrate an improvement in reconstruction quality over previous models as well as an increase in convergence speed compared to existing first-order methods.

The structural variations of multidomain proteins with flexible parts mediate many biological processes, and a structure ensemble can be determined by selecting a weighted combination of representative structures from a simulated structure pool, producing the best fit to experimental constraints such as interatomic distance. In this study, a hybrid structure-based and physics-based atomistic force field with an efficient sampling strategy is adopted to simulate a model di-domain protein against experimental paramagnetic relaxation enhancement (PRE) data that correspond to distance constraints. The molecular dynamics simulations produce a wide range of conformations depicted on a protein energy landscape. Subsequently, a conformational ensemble recovered with low-energy structures and the minimum-size restraint is identified in good agreement with experimental PRE rates, and the result is also supported by chemical shift perturbations and small-angle X-ray scattering data. It is illustrated that the regularizations of energy and ensemble-size prevent an arbitrary interpretation of protein conformations. Moreover, energy is found to serve as a critical control to refine the structure pool and prevent data overfitting, because the absence of energy regularization exposes ensemble construction to the noise from high-energy structures and causes a more ambiguous representation of protein conformations. Finally, we perform structure-ensemble optimizations with a topology-based structure pool, to enhance the understanding on the ensemble results from different sources of pool candidates.

Remarkable achievements have been obtained by deep neural networks in the last several years. However, the breakthrough in neural networks accuracy is always accompanied by explosive growth of computation and parameters, which leads to a severe limitation of model deployment. In this paper, we propose a novel knowledge distillation technique named self-distillation to address this problem. Self-distillation attaches several attention modules and shallow classifiers at different depths of neural networks and distills knowledge from the deepest classifier to the shallower classifiers. Different from the conventional knowledge distillation methods where the knowledge of the teacher model is transferred to another student model, self-distillation can be considered as knowledge transfer in the same model - from the deeper layers to the shallow layers. Moreover, the additional classifiers in self-distillation allow the neural network to work in a dynamic manner, which leads to a much higher acceleration. Experiments demonstrate that self-distillation has consistent and significant effectiveness on various neural networks and datasets. On average, 3.49% and 2.32% accuracy boost are observed on CIFAR100 and ImageNet. Besides, experiments show that self-distillation can be combined with other model compression methods, including knowledge distillation, pruning and lightweight model design.

The Chan-Vese (CV) model is a classic region-based method in image segmentation. However, its piecewise constant assumption does not always hold for practical applications. Many improvements have been proposed but the issue is still far from well solved. In this work, we propose an unsupervised image segmentation approach that integrates the CV model with deep neural networks, which significantly improves the original CV model's segmentation accuracy. Our basic idea is to apply a deep neural network that maps the image into a latent space to alleviate the violation of the piecewise constant assumption in image space. We formulate this idea under the classic Bayesian framework by approximating the likelihood with an evidence lower bound (ELBO) term while keeping the prior term in the CV model. Thus, our model only needs the input image itself and does not require pre-training from external datasets. Moreover, we extend the idea to multi-phase case and dataset based unsupervised image segmentation. Extensive experiments validate the effectiveness of our model and show that the proposed method is noticeably better than other unsupervised segmentation approaches.