Hongjie Wu

Linchao He, Hongyu Yan, Mengting Luo et al.

Diffusion models have recently been recognised as efficient inverse problem solvers due to their ability to produce high-quality reconstruction results without relying on pairwise data training. Existing diffusion-based solvers utilize Gradient Descent strategy to get a optimal sample solution. However, these solvers only calculate the current gradient and have not utilized any history information of sampling process, thus resulting in unstable optimization progresses and suboptimal solutions. To address this issue, we propose to utilize the history information of the diffusion-based inverse solvers. In this paper, we first prove that, in previous work, using the gradient descent method to optimize the data fidelity term is convergent. Building on this, we introduce the incorporation of historical gradients into this optimization process, termed History Gradient Update (HGU). We also provide theoretical evidence that HGU ensures the convergence of the entire algorithm. It's worth noting that HGU is applicable to both pixel-based and latent-based diffusion model solvers. Experimental results demonstrate that, compared to previous sampling algorithms, sampling algorithms with HGU achieves state-of-the-art results in medical image reconstruction, surpassing even supervised learning methods. Additionally, it achieves competitive results on natural images.

Yikang Zhang, Xiaomin Chu, Yelu Jiang et al.

A large number of inorganic and organic compounds are able to bind DNA and form complexes, among which drug-related molecules are important. Chromatin accessibility changes not only directly affects drug-DNA interactions, but also promote or inhibit the expression of critical genes associated with drug resistance by affecting the DNA binding capacity of TFs and transcriptional regulators. However, Biological experimental techniques for measuring it are expensive and time consuming. In recent years, several kinds of computational methods have been proposed to identify accessible regions of the genome. Existing computational models mostly ignore the contextual information of bases in gene sequences. To address these issues, we proposed a new solution named SemanticCAP. It introduces a gene language model which models the context of gene sequences, thus being able to provide an effective representation of a certain site in gene sequences. Basically, we merge the features provided by the gene language model into our chromatin accessibility model. During the process, we designed some methods to make feature fusion smoother. Compared with other systems under public benchmarks, our model proved to have better performance.

Hongjie Wu, Mingqin Zhang, Linchao He et al.

Diffusion models have shown remarkable promise for image restoration by leveraging powerful priors. Prominent methods typically frame the restoration problem within a Bayesian inference framework, which iteratively combines a denoising step with a likelihood guidance step. However, the interactions between these two components in the generation process remain underexplored. In this paper, we analyze the underlying gradient dynamics of these components and identify significant instabilities. Specifically, we demonstrate conflicts between the prior and likelihood gradient directions, alongside temporal fluctuations in the likelihood gradient itself. We show that these instabilities disrupt the generative process and compromise restoration performance. To address these issues, we propose Stabilized Progressive Gradient Diffusion (SPGD), a novel gradient management technique. SPGD integrates two synergistic components: (1) a progressive likelihood warm-up strategy to mitigate gradient conflicts; and (2) adaptive directional momentum (ADM) smoothing to reduce fluctuations in the likelihood gradient. Extensive experiments across diverse restoration tasks demonstrate that SPGD significantly enhances generation stability, leading to state-of-the-art performance in quantitative metrics and visually superior results. Code is available at https://github.com/74587887/SPGD.

Zhenxuan Zhang, Hongjie Wu, Jiahao Huang et al.

Multi-contrast magnetic resonance imaging (MRI) plays a vital role in brain tumor segmentation and diagnosis by leveraging complementary information from different contrasts. Each contrast highlights specific tumor characteristics, enabling a comprehensive understanding of tumor morphology, edema, and pathological heterogeneity. However, existing methods still face the challenges of multi-level specificity perception across different contrasts, especially with limited annotations. These challenges include data heterogeneity, granularity differences, and interference from redundant information. To address these limitations, we propose a Task-oriented Uncertainty Collaborative Learning (TUCL) framework for multi-contrast MRI segmentation. TUCL introduces a task-oriented prompt attention (TPA) module with intra-prompt and cross-prompt attention mechanisms to dynamically model feature interactions across contrasts and tasks. Additionally, a cyclic process is designed to map the predictions back to the prompt to ensure that the prompts are effectively utilized. In the decoding stage, the TUCL framework proposes a dual-path uncertainty refinement (DUR) strategy which ensures robust segmentation by refining predictions iteratively. Extensive experimental results on limited labeled data demonstrate that TUCL significantly improves segmentation accuracy (88.2\% in Dice and 10.853 mm in HD95). It shows that TUCL has the potential to extract multi-contrast information and reduce the reliance on extensive annotations. The code is available at: https://github.com/Zhenxuan-Zhang/TUCL_BrainSeg.

Hongjie Wu, Linchao He, Mingqin Zhang et al.

Diffusion models have demonstrated remarkable efficacy in generating high-quality samples. Existing diffusion-based image restoration algorithms exploit pre-trained diffusion models to leverage data priors, yet they still preserve elements inherited from the unconditional generation paradigm. These strategies initiate the denoising process with pure white noise and incorporate random noise at each generative step, leading to over-smoothed results. In this paper, we present a refined paradigm for diffusion-based image restoration. Specifically, we opt for a sample consistent with the measurement identity at each generative step, exploiting the sampling selection as an avenue for output stability and enhancement. The number of candidate samples used for selection is adaptively determined based on the signal-to-noise ratio of the timestep. Additionally, we start the restoration process with an initialization combined with the measurement signal, providing supplementary information to better align the generative process. Extensive experimental results and analyses validate that our proposed method significantly enhances image restoration performance while consuming negligible additional computational resources.