Jiashu Han

Zixuan Zhou, Xuefei Ning, Yi Cai et al.

One-shot Neural Architecture Search (NAS) has been widely used to discover architectures due to its efficiency. However, previous studies reveal that one-shot performance estimations of architectures might not be well correlated with their performances in stand-alone training because of the excessive sharing of operation parameters (i.e., large sharing extent) between architectures. Thus, recent methods construct even more over-parameterized supernets to reduce the sharing extent. But these improved methods introduce a large number of extra parameters and thus cause an undesirable trade-off between the training costs and the ranking quality. To alleviate the above issues, we propose to apply Curriculum Learning On Sharing Extent (CLOSE) to train the supernet both efficiently and effectively. Specifically, we train the supernet with a large sharing extent (an easier curriculum) at the beginning and gradually decrease the sharing extent of the supernet (a harder curriculum). To support this training strategy, we design a novel supernet (CLOSENet) that decouples the parameters from operations to realize a flexible sharing scheme and adjustable sharing extent. Extensive experiments demonstrate that CLOSE can obtain a better ranking quality across different computational budget constraints than other one-shot supernets, and is able to discover superior architectures when combined with various search strategies. Code is available at https://github.com/walkerning/aw_nas.

Yifan Feng, Jiashu Han, Shihui Ying et al.

The isomorphism problem is a fundamental problem in network analysis, which involves capturing both low-order and high-order structural information. In terms of extracting low-order structural information, graph isomorphism algorithms analyze the structural equivalence to reduce the solver space dimension, which demonstrates its power in many applications, such as protein design, chemical pathways, and community detection. For the more commonly occurring high-order relationships in real-life scenarios, the problem of hypergraph isomorphism, which effectively captures these high-order structural relationships, cannot be straightforwardly addressed using graph isomorphism methods. Besides, the existing hypergraph kernel methods may suffer from high memory consumption or inaccurate sub-structure identification, thus yielding sub-optimal performance. In this paper, to address the abovementioned problems, we first propose the hypergraph Weisfiler-Lehman test algorithm for the hypergraph isomorphism test problem by generalizing the Weisfiler-Lehman test algorithm from graphs to hypergraphs. Secondly, based on the presented algorithm, we propose a general hypergraph Weisfieler-Lehman kernel framework and implement two instances, which are Hypergraph Weisfeiler-Lehamn Subtree Kernel and Hypergraph Weisfeiler-Lehamn Hyperedge Kernel. In order to fulfill our research objectives, a comprehensive set of experiments was meticulously designed, including seven graph classification datasets and 12 hypergraph classification datasets. Results on hypergraph classification datasets show significant improvements compared to other typical kernel-based methods, which demonstrates the effectiveness of the proposed methods. In our evaluation, we found that our proposed methods outperform the second-best method in terms of runtime, running over 80 times faster when handling complex hypergraph structures.

Cassandra Tong Ye, Jiashu Han, Kunzan Liu et al.

Scanning microscopy systems, such as confocal and multiphoton microscopy, are powerful imaging tools for probing deep into biological tissue. However, scanning systems have an inherent trade-off between acquisition time, field of view, phototoxicity, and image quality, often resulting in noisy measurements when fast, large field of view, and/or gentle imaging is needed. Deep learning could be used to denoise noisy microscopy measurements, but these algorithms can be prone to hallucination, which can be disastrous for medical and scientific applications. We propose a method to simultaneously denoise and predict pixel-wise uncertainty for scanning microscopy systems, improving algorithm trustworthiness and providing statistical guarantees for deep learning predictions. Furthermore, we propose to leverage this learned, pixel-wise uncertainty to drive an adaptive acquisition technique that rescans only the most uncertain regions of a sample, saving time and reducing the total light dose to the sample. We demonstrate our method on experimental confocal and multiphoton microscopy systems, showing that our uncertainty maps can pinpoint hallucinations in the deep learned predictions. Finally, with our adaptive acquisition technique, we demonstrate up to 16X reduction in acquisition time and total light dose while successfully recovering fine features in the sample and reducing hallucinations. We are the first to demonstrate distribution-free uncertainty quantification for a denoising task with real experimental data and the first to propose adaptive acquisition based on reconstruction uncertainty.

Yuyang Li, Jiashu Han, Yinyi Lai et al.

Marine debris detection for ocean robot is crucial for ecological protection, yet performance is often degraded by low-quality images with blur, complex backgrounds, and small targets. To address these challenges, we propose YOLO-MD, an enhanced YOLO-based detection framework. A Dual-Branch Convolutional Enhanced Self-Attention (DB-CASA) module is designed to strengthen spatial-channel interactions, improving feature representation in degraded images. Additionally, a lightweight shift-based operation is introduced to enhance fine-grained feature extraction for objects of varying scales while maintaining parameter efficiency. We further propose SFG-Loss to mitigate class imbalance and optimization instability via dynamic sample reweighting. Experiments on the UODM dataset demonstrate that YOLO-MD achieves 0.875 precision, 0.822 F1-score, and 0.849 mAP50, outperforming the latest state-of-the-art methods. The effectiveness of this method has also been verified through real-world robotic edge deployment experiments.

Jiashu Han, Kunzan Liu, Yeojin Kim et al.

Bridging microscopy and omics would allow us to read molecular states from images-at single-cell resolution and tissue scale-without the cost and throughput limits of omics technologies. Self-supervised pretraining offers a scalable approach with minimal labels, yet how to encode single-cell identity within tissue environments-and the extent of biological information such models can capture-remains an open question. Here, we introduce MAD (microenvironment-aware distillation), a pretraining strategy that learns cell-centric embeddings by jointly self-distilling the morphology view and the microenvironment view of the same indexed cell into a unified embedding space. Across diverse tissues and imaging modalities, MAD achieves state-of-the-art prediction performance on downstream tasks including cell subtyping, transcriptomic prediction, and bioinformatic inference. MAD even outperforms foundation models with a similar number of model parameters that have been trained on substantially larger datasets. These results demonstrate that MAD's dual-view joint self-distillation effectively captures the complexity and diversity of cells within tissues. Together, this establishes MAD as a general tool for representation learning in microscopy, enabling virtual spatial omics and biological insights from vast microscopy datasets.