Jinfeng Wang

Feilong Tang, Qiming Huang, Jinfeng Wang et al.

Transformer-based models have been widely demonstrated to be successful in computer vision tasks by modelling long-range dependencies and capturing global representations. However, they are often dominated by features of large patterns leading to the loss of local details (e.g., boundaries and small objects), which are critical in medical image segmentation. To alleviate this problem, we propose a Dual-Aggregation Transformer Network called DuAT, which is characterized by two innovative designs, namely, the Global-to-Local Spatial Aggregation (GLSA) and Selective Boundary Aggregation (SBA) modules. The GLSA has the ability to aggregate and represent both global and local spatial features, which are beneficial for locating large and small objects, respectively. The SBA module is used to aggregate the boundary characteristic from low-level features and semantic information from high-level features for better preserving boundary details and locating the re-calibration objects. Extensive experiments in six benchmark datasets demonstrate that our proposed model outperforms state-of-the-art methods in the segmentation of skin lesion images, and polyps in colonoscopy images. In addition, our approach is more robust than existing methods in various challenging situations such as small object segmentation and ambiguous object boundaries.

Sifan Song, Jinfeng Wang, Fengrui Cheng et al.

Chromosomes carry the genetic information of humans. They exhibit non-rigid and non-articulated nature with varying degrees of curvature. Chromosome straightening is an important step for subsequent karyotype construction, pathological diagnosis and cytogenetic map development. However, robust chromosome straightening remains challenging, due to the unavailability of training images, distorted chromosome details and shapes after straightening, as well as poor generalization capability. In this paper, we propose a novel architecture, ViT-Patch GAN, consisting of a self-learned motion transformation generator and a Vision Transformer-based patch (ViT-Patch) discriminator. The generator learns the motion representation of chromosomes for straightening. With the help of the ViT-Patch discriminator, the straightened chromosomes retain more shape and banding pattern details. The experimental results show that the proposed method achieves better performance on Fréchet Inception Distance (FID), Learned Perceptual Image Patch Similarity (LPIPS) and downstream chromosome classification accuracy, and shows excellent generalization capability on a large dataset.

Yiman Liu, Qiming Huang, Xiaoxiang Han et al.

Purpose: Congenital heart defect (CHD) is the most common birth defect. Thoracic echocardiography (TTE) can provide sufficient cardiac structure information, evaluate hemodynamics and cardiac function, and is an effective method for atrial septal defect (ASD) examination. This paper aims to study a deep learning method based on cardiac ultrasound video to assist in ASD diagnosis. Materials and methods: We select two standard views of the atrial septum (subAS) and low parasternal four-compartment view (LPS4C) as the two views to identify ASD. We enlist data from 300 children patients as part of a double-blind experiment for five-fold cross-validation to verify the performance of our model. In addition, data from 30 children patients (15 positives and 15 negatives) are collected for clinician testing and compared to our model test results (these 30 samples do not participate in model training). We propose an echocardiography video-based atrial septal defect diagnosis system. In our model, we present a block random selection, maximal agreement decision and frame sampling strategy for training and testing respectively, resNet18 and r3D networks are used to extract the frame features and aggregate them to build a rich video-level representation. Results: We validate our model using our private dataset by five-cross validation. For ASD detection, we achieve 89.33 AUC, 84.95 accuracy, 85.70 sensitivity, 81.51 specificity and 81.99 F1 score. Conclusion: The proposed model is multiple instances learning-based deep learning model for video atrial septal defect detection which effectively improves ASD detection accuracy when compared to the performances of previous networks and clinical doctors.

Jinfeng Wang, Sifan Song, Xinkun Wang et al.

With the proposal of the Segment Anything Model (SAM), fine-tuning SAM for medical image segmentation (MIS) has become popular. However, due to the large size of the SAM model and the significant domain gap between natural and medical images, fine-tuning-based strategies are costly with potential risk of instability, feature damage and catastrophic forgetting. Furthermore, some methods of transferring SAM to a domain-specific MIS through fine-tuning strategies disable the model's prompting capability, severely limiting its utilization scenarios. In this paper, we propose an Auto-Prompting Module (APM), which provides SAM-based foundation model with Euclidean adaptive prompts in the target domain. Our experiments demonstrate that such adaptive prompts significantly improve SAM's non-fine-tuned performance in MIS. In addition, we propose a novel non-invasive method called Incremental Pattern Shifting (IPS) to adapt SAM to specific medical domains. Experimental results show that the IPS enables SAM to achieve state-of-the-art or competitive performance in MIS without the need for fine-tuning. By coupling these two methods, we propose ProMISe, an end-to-end non-fine-tuned framework for Promptable Medical Image Segmentation. Our experiments demonstrate that both using our methods individually or in combination achieves satisfactory performance in low-cost pattern shifting, with all of SAM's parameters frozen.

Sifan Song, Jinfeng Wang, Qiaochu Zhao et al.

Invariant Contrastive Learning (ICL) methods have achieved impressive performance across various domains. However, the absence of latent space representation for distortion (augmentation)-related information in the latent space makes ICL sub-optimal regarding training efficiency and robustness in downstream tasks. Recent studies suggest that introducing equivariance into Contrastive Learning (CL) can improve overall performance. In this paper, we revisit the roles of augmentation strategies and equivariance in improving CL's efficacy. We propose CLeVER (Contrastive Learning Via Equivariant Representation), a novel equivariant contrastive learning framework compatible with augmentation strategies of arbitrary complexity for various mainstream CL backbone models. Experimental results demonstrate that CLeVER effectively extracts and incorporates equivariant information from practical natural images, thereby improving the training efficiency and robustness of baseline models in downstream tasks and achieving state-of-the-art (SOTA) performance. Moreover, we find that leveraging equivariant information extracted by CLeVER simultaneously enhances rotational invariance and sensitivity across experimental tasks, and helps stabilize the framework when handling complex augmentations, particularly for models with small-scale backbones.