Haoran Li

Canran Li, Dongnan Liu, Haoran Li et al. · meta-ai

Unsupervised domain adaptation (UDA) methods have been broadly utilized to improve the models' adaptation ability in general computer vision. However, different from the natural images, there exist huge semantic gaps for the nuclei from different categories in histopathology images. It is still under-explored how could we build generalized UDA models for precise segmentation or classification of nuclei instances across different datasets. In this work, we propose a novel deep neural network, namely Category-Aware feature alignment and Pseudo-Labelling Network (CAPL-Net) for UDA nuclei instance segmentation and classification. Specifically, we first propose a category-level feature alignment module with dynamic learnable trade-off weights. Second, we propose to facilitate the model performance on the target data via self-supervised training with pseudo labels based on nuclei-level prototype features. Comprehensive experiments on cross-domain nuclei instance segmentation and classification tasks demonstrate that our approach outperforms state-of-the-art UDA methods with a remarkable margin.

Haoran Li, Jiahua Shi, Huaming Chen et al.

Artificially generated induced pluripotent stem cells (iPSCs) from somatic cells play an important role for disease modeling and drug screening of neurodegenerative diseases. Astrocytes differentiated from iPSCs are important targets to investigate neuronal metabolism. The astrocyte differentiation progress can be monitored through the variations of morphology observed from microscopy images at different differentiation stages, then determined by molecular biology techniques upon maturation. However, the astrocytes usually ``perfectly'' blend into the background and some of them are covered by interference information (i.e., dead cells, media sediments, and cell debris), which makes astrocytes difficult to observe. Due to the lack of annotated datasets, the existing state-of-the-art deep learning approaches cannot be used to address this issue. In this paper, we introduce a new task named astrocyte segmentation with a novel dataset, called IAI704, which contains 704 images and their corresponding pixel-level annotation masks. Moreover, a novel frequency domain denoising network, named FDNet, is proposed for astrocyte segmentation. In detail, our FDNet consists of a contextual information fusion module (CIF), an attention block (AB), and a Fourier transform block (FTB). CIF and AB fuse multi-scale feature embeddings to localize the astrocytes. FTB transforms feature embeddings into the frequency domain and conducts a high-pass filter to eliminate interference information. Experimental results demonstrate the superiority of our proposed FDNet over the state-of-the-art substitutes in astrocyte segmentation, shedding insights for iPSC differentiation progress prediction.

Xuechun Liu, Heli Sun, Xuecheng Wu et al.

Multivariate time series anomaly detection (MTSAD) aims to accurately identify and localize complex abnormal patterns in the large-scale industrial control systems. While existing approaches excel in recognizing the distinct patterns under the low-dimensional scenarios, they often fail to robustly capture long-range spatiotemporal dependencies when learning representations from the high-dimensional noisy time series. To address these limitations, we propose DARTs, a robust long short-term dual-path framework with window-aware spatiotemporal soft fusion mechanism, which can be primarily decomposed into three complementary components. Specifically, in the short-term path, we introduce a Multi-View Sparse Graph Learner and a Diffusion Multi-Relation Graph Unit that collaborate to adaptively capture hierarchical discriminative short-term spatiotemporal patterns in the high-noise time series. While in the long-term path, we design a Multi-Scale Spatiotemporal Graph Constructor to model salient long-term dynamics within the high-dimensional representation space. Finally, a window-aware spatiotemporal soft-fusion mechanism is introduced to filter the residual noise while seamlessly integrating anomalous patterns. Extensive qualitative and quantitative experimental results across mainstream datasets demonstrate the superiority and robustness of our proposed DARTs. A series of ablation studies are also conducted to explore the crucial design factors of our proposed components. Our code and model will be made publicly open soon.

Huan Wang, Haoran Li, Huaming Chen et al.

Federated learning (FL) aims to train models collaboratively across clients without sharing data for privacy-preserving. However, one major challenge is the data heterogeneity issue, which refers to the biased labeling preferences at multiple clients. A number of existing FL methods attempt to tackle data heterogeneity locally (e.g., regularizing local models) or globally (e.g., fine-tuning global model), often neglecting inherent semantic information contained in each client. To explore the possibility of using intra-client semantically meaningful knowledge in handling data heterogeneity, in this paper, we propose Federated Learning with Semantic-Aware Collaboration (FedSC) to capture client-specific and class-relevant knowledge across heterogeneous clients. The core idea of FedSC is to construct relational prototypes and consistent prototypes at semantic-level, aiming to provide fruitful class underlying knowledge and stable convergence signals in a prototype-wise collaborative way. On the one hand, FedSC introduces an inter-contrastive learning strategy to bring instance-level embeddings closer to relational prototypes with the same semantics and away from distinct classes. On the other hand, FedSC devises consistent prototypes via a discrepancy aggregation manner, as a regularization penalty to constrain the optimization region of the local model. Moreover, a theoretical analysis for FedSC is provided to ensure a convergence guarantee. Experimental results on various challenging scenarios demonstrate the effectiveness of FedSC and the efficiency of crucial components.

Haoran Li, Xingjian Li, Jiahua Shi et al.

Cryo-Electron Tomography (cryo-ET) is a 3D imaging technology facilitating the study of macromolecular structures at near-atomic resolution. Recent volumetric segmentation approaches on cryo-ET images have drawn widespread interest in biological sector. However, existing methods heavily rely on manually labeled data, which requires highly professional skills, thereby hindering the adoption of fully-supervised approaches for cryo-ET images. Some unsupervised domain adaptation (UDA) approaches have been designed to enhance the segmentation network performance using unlabeled data. However, applying these methods directly to cryo-ET images segmentation tasks remains challenging due to two main issues: 1) the source data, usually obtained through simulation, contain a certain level of noise, while the target data, directly collected from raw-data from real-world scenario, have unpredictable noise levels. 2) the source data used for training typically consists of known macromoleculars, while the target domain data are often unknown, causing the model's segmenter to be biased towards these known macromolecules, leading to a domain shift problem. To address these challenges, in this work, we introduce the first voxel-wise unsupervised domain adaptation approach, termed Vox-UDA, specifically for cryo-ET subtomogram segmentation. Vox-UDA incorporates a noise generation module to simulate target-like noises in the source dataset for cross-noise level adaptation. Additionally, we propose a denoised pseudo-labeling strategy based on improved Bilateral Filter to alleviate the domain shift problem. Experimental results on both simulated and real cryo-ET subtomogram datasets demonstrate the superiority of our proposed approach compared to state-of-the-art UDA methods.