Yaoqin Xie

Xuan Liu, Yaoqin Xie, Songhui Diao et al.

During the process of computed tomography (CT), metallic implants often cause disruptive artifacts in the reconstructed images, impeding accurate diagnosis. Several supervised deep learning-based approaches have been proposed for reducing metal artifacts (MAR). However, these methods heavily rely on training with simulated data, as obtaining paired metal artifact CT and clean CT data in clinical settings is challenging. This limitation can lead to decreased performance when applying these methods in clinical practice. Existing unsupervised MAR methods, whether based on learning or not, typically operate within a single domain, either in the image domain or the sinogram domain. In this paper, we propose an unsupervised MAR method based on the diffusion model, a generative model with a high capacity to represent data distributions. Specifically, we first train a diffusion model using CT images without metal artifacts. Subsequently, we iteratively utilize the priors embedded within the pre-trained diffusion model in both the sinogram and image domains to restore the degraded portions caused by metal artifacts. This dual-domain processing empowers our approach to outperform existing unsupervised MAR methods, including another MAR method based on the diffusion model, which we have qualitatively and quantitatively validated using synthetic datasets. Moreover, our method demonstrates superior visual results compared to both supervised and unsupervised methods on clinical datasets.

Shilong Yang, Chulong Zhang, Qi Zang et al.

Breast cancer is a significant global health issue, and the diagnosis of breast imaging has always been challenging. Mammography images typically have extremely high resolution, with lesions occupying only a very small area. Down-sampling in neural networks can easily lead to the loss of microcalcifications or subtle structures, making it difficult for traditional neural network architectures to address these issues. To tackle these challenges, we propose a Context Clustering Network with triple information fusion. Firstly, compared to CNNs or transformers, we find that Context clustering methods (1) are more computationally efficient and (2) can more easily associate structural or pathological features, making them suitable for the clinical tasks of mammography. Secondly, we propose a triple information fusion mechanism that integrates global information, feature-based local information, and patch-based local information. The proposed approach is rigorously evaluated on two public datasets, Vindr-Mammo and CBIS-DDSM, using five independent splits to ensure statistical robustness. Our method achieves an AUC of 0.828 on Vindr-Mammo and 0.805 on CBIS-DDSM, outperforming the next best method by 3.1% and 2.4%, respectively. These improvements are statistically significant (p<0.05), underscoring the benefits of Context Clustering Network with triple information fusion. Overall, our Context Clustering framework demonstrates strong potential as a scalable and cost-effective solution for large-scale mammography screening, enabling more efficient and accurate breast cancer detection. Access to our method is available at https://github.com/Sohyu1/Mammo_Clustering.

Chulong Zhang, Yuming Jiang, Na Li et al.

Pathologists need to combine information from differently stained pathology slices for accurate diagnosis. Deformable image registration is a necessary technique for fusing multi-modal pathology slices. This paper proposes a hybrid deep feature-based deformable image registration framework for stained pathology samples. We first extract dense feature points via the detector-based and detector-free deep learning feature networks and perform points matching. Then, to further reduce false matches, an outlier detection method combining the isolation forest statistical model and the local affine correction model is proposed. Finally, the interpolation method generates the deformable vector field for pathology image registration based on the above matching points. We evaluate our method on the dataset of the Non-rigid Histology Image Registration (ANHIR) challenge, which is co-organized with the IEEE ISBI 2019 conference. Our technique outperforms the traditional approaches by 17% with the Average-Average registration target error (rTRE) reaching 0.0034. The proposed method achieved state-of-the-art performance and ranked 1st in evaluating the test dataset. The proposed hybrid deep feature-based registration method can potentially become a reliable method for pathology image registration.

Lin Liu, Xinxin Fan, Haoyang Liu et al.

Rigid pre-registration involving local-global matching or other large deformation scenarios is crucial. Current popular methods rely on unsupervised learning based on grayscale similarity, but under circumstances where different poses lead to varying tissue structures, or where image quality is poor, these methods tend to exhibit instability and inaccuracies. In this study, we propose a novel method for medical image registration based on arbitrary voxel point of interest matching, called query point quizzer (QUIZ). QUIZ focuses on the correspondence between local-global matching points, specifically employing CNN for feature extraction and utilizing the Transformer architecture for global point matching queries, followed by applying average displacement for local image rigid transformation. We have validated this approach on a large deformation dataset of cervical cancer patients, with results indicating substantially smaller deviations compared to state-of-the-art methods. Remarkably, even for cross-modality subjects, it achieves results surpassing the current state-of-the-art.

Lin Liu, Xinxin Fan, Chulong Zhang et al.

Multimodal medical image fusion plays an instrumental role in several areas of medical image processing, particularly in disease recognition and tumor detection. Traditional fusion methods tend to process each modality independently before combining the features and reconstructing the fusion image. However, this approach often neglects the fundamental commonalities and disparities between multimodal information. Furthermore, the prevailing methodologies are largely confined to fusing two-dimensional (2D) medical image slices, leading to a lack of contextual supervision in the fusion images and subsequently, a decreased information yield for physicians relative to three-dimensional (3D) images. In this study, we introduce an innovative unsupervised feature mutual learning fusion network designed to rectify these limitations. Our approach incorporates a Deformable Cross Feature Blend (DCFB) module that facilitates the dual modalities in discerning their respective similarities and differences. We have applied our model to the fusion of 3D MRI and PET images obtained from 660 patients in the Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset. Through the application of the DCFB module, our network generates high-quality MRI-PET fusion images. Experimental results demonstrate that our method surpasses traditional 2D image fusion methods in performance metrics such as Peak Signal to Noise Ratio (PSNR) and Structural Similarity Index Measure (SSIM). Importantly, the capacity of our method to fuse 3D images enhances the information available to physicians and researchers, thus marking a significant step forward in the field. The code will soon be available online.

Shilong Yang, Qi Zang, Chulong Zhang et al.

Traditional Chinese acupuncture methods often face controversy in clinical practice due to their high subjectivity. Additionally, current intelligent-assisted acupuncture systems have two major limitations: slow acupoint localization speed and low accuracy. To address these limitations, a new method leverages the excellent inference efficiency of the state-space model Mamba, while retaining the advantages of the attention mechanism in the traditional DETR architecture, to achieve efficient global information integration and provide high-quality feature information for acupoint localization tasks. Furthermore, by employing the concept of residual likelihood estimation, it eliminates the need for complex upsampling processes, thereby accelerating the acupoint localization task. Our method achieved state-of-the-art (SOTA) accuracy on a private dataset of acupoints on the human back, with an average Euclidean distance pixel error (EPE) of 7.792 and an average time consumption of 10.05 milliseconds per localization task. Compared to the second-best algorithm, our method improved both accuracy and speed by approximately 14\%. This significant advancement not only enhances the efficacy of acupuncture treatment but also demonstrates the commercial potential of automated acupuncture robot systems. Access to our method is available at https://github.com/Sohyu1/RT-DEMT

Xuan Liu, Yaoqin Xie, Jun Cheng et al.

Denoising low-dose computed tomography (CT) images is a critical task in medical image computing. Supervised deep learning-based approaches have made significant advancements in this area in recent years. However, these methods typically require pairs of low-dose and normal-dose CT images for training, which are challenging to obtain in clinical settings. Existing unsupervised deep learning-based methods often require training with a large number of low-dose CT images or rely on specially designed data acquisition processes to obtain training data. To address these limitations, we propose a novel unsupervised method that only utilizes normal-dose CT images during training, enabling zero-shot denoising of low-dose CT images. Our method leverages the diffusion model, a powerful generative model. We begin by training a cascaded unconditional diffusion model capable of generating high-quality normal-dose CT images from low-resolution to high-resolution. The cascaded architecture makes the training of high-resolution diffusion models more feasible. Subsequently, we introduce low-dose CT images into the reverse process of the diffusion model as likelihood, combined with the priors provided by the diffusion model and iteratively solve multiple maximum a posteriori (MAP) problems to achieve denoising. Additionally, we propose methods to adaptively adjust the coefficients that balance the likelihood and prior in MAP estimations, allowing for adaptation to different noise levels in low-dose CT images. We test our method on low-dose CT datasets of different regions with varying dose levels. The results demonstrate that our method outperforms the state-of-the-art unsupervised method and surpasses several supervised deep learning-based methods. Codes are available in https://github.com/DeepXuan/Dn-Dp.

Shaode Yu, Haobo Chen, Hang Yu et al.

Feature selection is important in data representation and intelligent diagnosis. Elastic net is one of the most widely used feature selectors. However, the features selected are dependant on the training data, and their weights dedicated for regularized regression are irrelevant to their importance if used for feature ranking, that degrades the model interpretability and extension. In this study, an intuitive idea is put at the end of multiple times of data splitting and elastic net based feature selection. It concerns the frequency of selected features and uses the frequency as an indicator of feature importance. After features are sorted according to their frequency, linear support vector machine performs the classification in an incremental manner. At last, a compact subset of discriminative features is selected by comparing the prediction performance. Experimental results on breast cancer data sets (BCDR-F03, WDBC, GSE 10810, and GSE 15852) suggest that the proposed framework achieves competitive or superior performance to elastic net and with consistent selection of fewer features. How to further enhance its consistency on high-dimension small-sample-size data sets should be paid more attention in our future work. The proposed framework is accessible online (https://github.com/NicoYuCN/elasticnetFR).

Shaode Yu, Zhicheng Zhang, Xiaokun Liang et al.

More attention is being paid for feature importance ranking (FIR), in particular when thousands of features can be extracted for intelligent diagnosis and personalized medicine. A large number of FIR approaches have been proposed, while few are integrated for comparison and real-life applications. In this study, a matlab toolbox is presented and a total of 30 algorithms are collected. Moreover, the toolbox is evaluated on a database of 163 ultrasound images. To each breast mass lesion, 15 features are extracted. To figure out the optimal subset of features for classification, all combinations of features are tested and linear support vector machine is used for the malignancy prediction of lesions annotated in ultrasound images. At last, the effectiveness of FIR is analyzed according to performance comparison. The toolbox is online (https://github.com/NicoYuCN/matFIR). In our future work, more FIR methods, feature selection methods and machine learning classifiers will be integrated.

Chulong Zhang, Lin Liu, Jingjing Dai et al.

Computed tomography (CT) scans offer a detailed, three-dimensional representation of patients' internal organs. However, conventional CT reconstruction techniques necessitate acquiring hundreds or thousands of x-ray projections through a complete rotational scan of the body, making navigation or positioning during surgery infeasible. In image-guided radiation therapy, a method that reconstructs ultra-sparse X-ray projections into CT images, we can exploit the substantially reduced radiation dose and minimize equipment burden for localization and navigation. In this study, we introduce a novel Transformer architecture, termed XTransCT, devised to facilitate real-time reconstruction of CT images from two-dimensional X-ray images. We assess our approach regarding image quality and structural reliability using a dataset of fifty patients, supplied by a hospital, as well as the larger public dataset LIDC-IDRI, which encompasses thousands of patients. Additionally, we validated our algorithm's generalizability on the LNDb dataset. Our findings indicate that our algorithm surpasses other methods in image quality, structural precision, and generalizability. Moreover, in comparison to previous 3D convolution-based approaches, we note a substantial speed increase of approximately 300 %, achieving 44 ms per 3D image reconstruction.

Shaode Yu, Qingsong Zhu, Shibin Wu et al.

Many interpolation methods have been developed for high visual quality, but fail for inability to preserve image structures. Edges carry heavy structural information for detection, determination and classification. Edge-adaptive interpolation approaches become a center of focus. In this paper, performance of four edge-directed interpolation methods comparing with two traditional methods is evaluated on two groups of images. These methods include new edge-directed interpolation (NEDI), edge-guided image interpolation (EGII), iterative curvature-based interpolation (ICBI), directional cubic convolution interpolation (DCCI) and two traditional approaches, bi-linear and bi-cubic. Meanwhile, no parameters are mentioned to measure edge-preserving ability of edge-adaptive interpolation approaches and we proposed two. One evaluates accuracy and the other measures robustness of edge-preservation ability. Performance evaluation is based on six parameters. Objective assessment and visual analysis are illustrated and conclusions are drawn from theoretical backgrounds and practical results.