Shaowei Jiang

Lucas Kreiss, Shaowei Jiang, Xiang Li et al. · pku

Until recently, conventional biochemical staining had the undisputed status as well-established benchmark for most biomedical problems related to clinical diagnostics, fundamental research and biotechnology. Despite this role as gold-standard, staining protocols face several challenges, such as a need for extensive, manual processing of samples, substantial time delays, altered tissue homeostasis, limited choice of contrast agents for a given sample, 2D imaging instead of 3D tomography and many more. Label-free optical technologies, on the other hand, do not rely on exogenous and artificial markers, by exploiting intrinsic optical contrast mechanisms, where the specificity is typically less obvious to the human observer. Over the past few years, digital staining has emerged as a promising concept to use modern deep learning for the translation from optical contrast to established biochemical contrast of actual stainings. In this review article, we provide an in-depth analysis of the current state-of-the-art in this field, suggest methods of good practice, identify pitfalls and challenges and postulate promising advances towards potential future implementations and applications.

Xiaohua Jiang, Yihao Guo, Jian Huang et al.

The precise spatial and quantitative delineation of indistinct-boundary medical objects is paramount for the accuracy of diagnostic protocols, efficacy of surgical interventions, and reliability of postoperative assessments. Despite their significance, the effective segmentation and instantaneous three-dimensional reconstruction are significantly impeded by the paucity of representative samples in available datasets and noise artifacts. To surmount these challenges, we introduced Stochastic Defect Injection (SDi) to augment the representational diversity of challenging indistinct-boundary objects within training corpora. Consequently, we propose the Dual-Encoder Fourier Group Harmonics Network (DEFN) to tailor noise filtration, amplify detailed feature recognition, and bolster representation across diverse medical imaging scenarios. By incorporating Dynamic Weight Composing (DWC) loss dynamically adjusts model's focus based on training progression, DEFN achieves SOTA performance on the OIMHS public dataset, showcasing effectiveness in indistinct boundary contexts. Source code for DEFN is available at: https://github.com/IMOP-lab/DEFN-pytorch.

Shaowei Jiang, Kaikai Guo, Jun Liao et al.

Fourier ptychography is a recently developed imaging approach for large field-of-view and high-resolution microscopy. Here we model the Fourier ptychographic forward imaging process using a convolution neural network (CNN) and recover the complex object information in the network training process. In this approach, the input of the network is the point spread function in the spatial domain or the coherent transfer function in the Fourier domain. The object is treated as 2D learnable weights of a convolution or a multiplication layer. The output of the network is modeled as the loss function we aim to minimize. The batch size of the network corresponds to the number of captured low-resolution images in one forward / backward pass. We use a popular open-source machine learning library, TensorFlow, for setting up the network and conducting the optimization process. We analyze the performance of different learning rates, different solvers, and different batch sizes. It is shown that a large batch size with the Adam optimizer achieves the best performance in general. To accelerate the phase retrieval process, we also discuss a strategy to implement Fourier-magnitude projection using a multiplication neural network model. Since convolution and multiplication are the two most-common operations in imaging modeling, the reported approach may provide a new perspective to examine many coherent and incoherent systems. As a demonstration, we discuss the extensions of the reported networks for modeling single-pixel imaging and structured illumination microscopy (SIM). 4-frame resolution doubling is demonstrated using a neural network for SIM. We have made our implementation code open-source for the broad research community.

Zhiwen Zheng, Yiwei Ouyang, Zhao Huang et al.

Accurately localizing and segmenting obscured objects from faint light patterns beyond the field of view is highly challenging due to multiple scattering and medium-induced perturbations. Most existing methods, based on real-valued modeling or local convolutional operations, are inadequate for capturing the underlying physics of coherent light propagation. Moreover, under low signal-to-noise conditions, these methods often converge to non-physical solutions, severely compromising the stability and reliability of the observation. To address these challenges, we propose a novel physics-driven Wavefront Propagating Compensation Network (WavePCNet) to simulate wavefront propagation and enhance the perception of obscured objects. This WavePCNet integrates the Tri-Phase Wavefront Complex-Propagation Reprojection (TriWCP) to incorporate complex amplitude transfer operators to precisely constrain coherent propagation behavior, along with a momentum memory mechanism to effectively suppress the accumulation of perturbations. Additionally, a High-frequency Cross-layer Compensation Enhancement is introduced to construct frequency-selective pathways with multi-scale receptive fields and dynamically model structural consistency across layers, further boosting the model's robustness and interpretability under complex environmental conditions. Extensive experiments conducted on four physically collected datasets demonstrate that WavePCNet consistently outperforms state-of-the-art methods across both accuracy and robustness.

Shao-Wei Fan Jiang, Bi-Cheng Yan, Tien-Hong Lo et al.

With the acceleration of globalization, more and more people are willing or required to learn second languages (L2). One of the major remaining challenges facing current mispronunciation and diagnosis (MDD) models for use in computer-assisted pronunciation training (CAPT) is to handle speech from L2 learners with a diverse set of accents. In this paper, we set out to mitigate the adverse effects of accent variety in building an L2 English MDD system with end-to-end (E2E) neural models. To this end, we first propose an effective modeling framework that infuses accent features into an E2E MDD model, thereby making the model more accent-aware. Going a step further, we design and present disparate accent-aware modules to perform accent-aware modulation of acoustic features in a finer-grained manner, so as to enhance the discriminating capability of the resulting MDD model. Extensive sets of experiments conducted on the L2-ARCTIC benchmark dataset show the merits of our MDD model, in comparison to some existing E2E-based strong baselines and the celebrated pronunciation scoring based method.

Yongbing Zhang, Yangzhe Liu, Xiu Li et al.

Fourier ptychography (FP) is a newly developed computational imaging approach that achieves both high resolution and wide field of view by stitching a series of low-resolution images captured under angle-varied illumination. So far, many supervised data-driven models have been applied to solve inverse imaging problems. These models need massive amounts of data to train, and are limited by the dataset characteristics. In FP problems, generic datasets are always scarce, and the optical aberration varies greatly under different acquisition conditions. To address these dilemmas, we model the forward physical imaging process as an interpretable physics-guided neural network (PgNN), where the reconstructed image in the complex domain is considered as the learnable parameters of the neural network. Since the optimal parameters of the PgNN can be derived by minimizing the difference between the model-generated images and real captured angle-varied images corresponding to the same scene, the proposed PgNN can get rid of the problem of massive training data as in traditional supervised methods. Applying the alternate updating mechanism and the total variation regularization, PgNN can flexibly reconstruct images with improved performance. In addition, the Zernike mode is incorporated to compensate for optical aberrations to enhance the robustness of FP reconstructions. As a demonstration, we show our method can reconstruct images with smooth performance and detailed information in both simulated and experimental datasets. In particular, when validated in an extension of a high-defocus, high-exposure tissue section dataset, PgNN outperforms traditional FP methods with fewer artifacts and distinguishable structures.