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Improving the fairness of federated learning (FL) benefits healthy and sustainable collaboration, especially for medical applications. However, existing fair FL methods ignore the specific characteristics of medical FL applications, i.e., domain shift among the datasets from different hospitals. In this work, we propose Fed-LWR to improve performance fairness from the perspective of feature shift, a key issue influencing the performance of medical FL systems caused by domain shift. Specifically, we dynamically perceive the bias of the global model across all hospitals by estimating the layer-wise difference in feature representations between local and global models. To minimize global divergence, we assign higher weights to hospitals with larger differences. The estimated client weights help us to re-aggregate the local models per layer to obtain a fairer global model. We evaluate our method on two widely used federated medical image segmentation benchmarks. The results demonstrate that our method achieves better and fairer performance compared with several state-of-the-art fair FL methods., Comment: 11 pages, 2 Figures

AI-assisted lesion detection models play a crucial role in the early screening of cancer. However, previous image-based models ignore the inter-frame contextual information present in videos. On the other hand, video-based models capture the inter-frame context but are computationally expensive. To mitigate this contradiction, we delve into Video-to-Image knowledge distillation leveraging DEtection TRansformer (V2I-DETR) for the task of medical video lesion detection. V2I-DETR adopts a teacher-student network paradigm. The teacher network aims at extracting temporal contexts from multiple frames and transferring them to the student network, and the student network is an image-based model dedicated to fast prediction in inference. By distilling multi-frame contexts into a single frame, the proposed V2I-DETR combines the advantages of utilizing temporal contexts from video-based models and the inference speed of image-based models. Through extensive experiments, V2I-DETR outperforms previous state-of-the-art methods by a large margin while achieving the real-time inference speed (30 FPS) as the image-based model., Comment: BIBM2024

Endorectal ultrasound (ERUS) is an important imaging modality that provides high reliability for diagnosing the depth and boundary of invasion in colorectal cancer. However, the lack of a large-scale ERUS dataset with high-quality annotations hinders the development of automatic ultrasound diagnostics. In this paper, we collected and annotated the first benchmark dataset that covers diverse ERUS scenarios, i.e. colorectal cancer segmentation, detection, and infiltration depth staging. Our ERUS-10K dataset comprises 77 videos and 10,000 high-resolution annotated frames. Based on this dataset, we further introduce a benchmark model for colorectal cancer segmentation, named the Adaptive Sparse-context TRansformer (ASTR). ASTR is designed based on three considerations: scanning mode discrepancy, temporal information, and low computational complexity. For generalizing to different scanning modes, the adaptive scanning-mode augmentation is proposed to convert between raw sector images and linear scan ones. For mining temporal information, the sparse-context transformer is incorporated to integrate inter-frame local and global features. For reducing computational complexity, the sparse-context block is introduced to extract contextual features from auxiliary frames. Finally, on the benchmark dataset, the proposed ASTR model achieves a 77.6% Dice score in rectal cancer segmentation, largely outperforming previous state-of-the-art methods.

Aside from offering state-of-the-art performance in medical image generation, denoising diffusion probabilistic models (DPM) can also serve as a representation learner to capture semantic information and potentially be used as an image representation for downstream tasks, e.g., segmentation. However, these latent semantic representations rely heavily on labor-intensive pixel-level annotations as supervision, limiting the usability of DPM in medical image segmentation. To address this limitation, we propose an enhanced diffusion segmentation model, called TextDiff, that improves semantic representation through inexpensive medical text annotations, thereby explicitly establishing semantic representation and language correspondence for diffusion models. Concretely, TextDiff extracts intermediate activations of the Markov step of the reverse diffusion process in a pretrained diffusion model on large-scale natural images and learns additional expert knowledge by combining them with complementary and readily available diagnostic text information. TextDiff freezes the dual-branch multi-modal structure and mines the latent alignment of semantic features in diffusion models with diagnostic descriptions by only training the cross-attention mechanism and pixel classifier, making it possible to enhance semantic representation with inexpensive text. Extensive experiments on public QaTa-COVID19 and MoNuSeg datasets show that our TextDiff is significantly superior to the state-of-the-art multi-modal segmentation methods with only a few training samples., Comment: MICCAI 2024, Early Accept

Black-box tuning has attracted recent attention due to that the structure or inner parameters of advanced proprietary models are not accessible. Proxy-tuning provides a test-time output adjustment for tuning black-box language models. It applies the difference of the output logits before and after tuning a smaller white-box "proxy" model to improve the black-box model. However, this technique serves only as a decoding-time algorithm, leading to an inconsistency between training and testing which potentially limits overall performance. To address this problem, we introduce Consistent Proxy Tuning (CPT), a simple yet effective black-box tuning method. Different from Proxy-tuning, CPT additionally exploits the frozen large black-box model and another frozen small white-box model, ensuring consistency between training-stage optimization objective and test-time proxies. This consistency benefits Proxy-tuning and enhances model performance. Note that our method focuses solely on logit-level computation, which makes it model-agnostic and applicable to any task involving logit classification. Extensive experimental results demonstrate the superiority of our CPT in both black-box tuning of Large Language Models (LLMs) and Vision-Language Models (VLMs) across various datasets. The code is available at https://github.com/chunmeifeng/CPT., Comment: 10 pages,2 figures plus supplementary materials

In real-world conversations, the diversity and ambiguity of stickers often lead to varied interpretations based on the context, necessitating the requirement for comprehensively understanding stickers and supporting multi-tagging. To address this challenge, we introduce StickerTAG, the first multi-tag sticker dataset comprising a collected tag set with 461 tags and 13,571 sticker-tag pairs, designed to provide a deeper understanding of stickers. Recognizing multiple tags for stickers becomes particularly challenging due to sticker tags usually are fine-grained attribute aware. Hence, we propose an Attentive Attribute-oriented Prompt Learning method, ie, Att$^2$PL, to capture informative features of stickers in a fine-grained manner to better differentiate tags. Specifically, we first apply an Attribute-oriented Description Generation (ADG) module to obtain the description for stickers from four attributes. Then, a Local Re-attention (LoR) module is designed to perceive the importance of local information. Finally, we use prompt learning to guide the recognition process and adopt confidence penalty optimization to penalize the confident output distribution. Extensive experiments show that our method achieves encouraging results for all commonly used metrics.

Albeit progress has been made in Composed Image Retrieval (CIR), we empirically find that a certain percentage of failure retrieval results are not consistent with their relative captions. To address this issue, this work provides a Visual Question Answering (VQA) perspective to boost the performance of CIR. The resulting VQA4CIR is a post-processing approach and can be directly plugged into existing CIR methods. Given the top-C retrieved images by a CIR method, VQA4CIR aims to decrease the adverse effect of the failure retrieval results being inconsistent with the relative caption. To find the retrieved images inconsistent with the relative caption, we resort to the "QA generation to VQA" self-verification pipeline. For QA generation, we suggest fine-tuning LLM (e.g., LLaMA) to generate several pairs of questions and answers from each relative caption. We then fine-tune LVLM (e.g., LLaVA) to obtain the VQA model. By feeding the retrieved image and question to the VQA model, one can find the images inconsistent with relative caption when the answer by VQA is inconsistent with the answer in the QA pair. Consequently, the CIR performance can be boosted by modifying the ranks of inconsistently retrieved images. Experimental results show that our proposed method outperforms state-of-the-art CIR methods on the CIRR and Fashion-IQ datasets.

3D Visual Grounding (3DVG) aims at localizing 3D object based on textual descriptions. Conventional supervised methods for 3DVG often necessitate extensive annotations and a predefined vocabulary, which can be restrictive. To address this issue, we propose a novel visual programming approach for zero-shot open-vocabulary 3DVG, leveraging the capabilities of large language models (LLMs). Our approach begins with a unique dialog-based method, engaging with LLMs to establish a foundational understanding of zero-shot 3DVG. Building on this, we design a visual program that consists of three types of modules, i.e., view-independent, view-dependent, and functional modules. These modules, specifically tailored for 3D scenarios, work collaboratively to perform complex reasoning and inference. Furthermore, we develop an innovative language-object correlation module to extend the scope of existing 3D object detectors into open-vocabulary scenarios. Extensive experiments demonstrate that our zero-shot approach can outperform some supervised baselines, marking a significant stride towards effective 3DVG., Comment: Accepted by CVPR 2024, project website: https://curryyuan.github.io/ZSVG3D/

Composed image retrieval (CIR) is the task of retrieving specific images by using a query that involves both a reference image and a relative caption. Most existing CIR models adopt the late-fusion strategy to combine visual and language features. Besides, several approaches have also been suggested to generate a pseudo-word token from the reference image, which is further integrated into the relative caption for CIR. However, these pseudo-word-based prompting methods have limitations when target image encompasses complex changes on reference image, e.g., object removal and attribute modification. In this work, we demonstrate that learning an appropriate sentence-level prompt for the relative caption (SPRC) is sufficient for achieving effective composed image retrieval. Instead of relying on pseudo-word-based prompts, we propose to leverage pretrained V-L models, e.g., BLIP-2, to generate sentence-level prompts. By concatenating the learned sentence-level prompt with the relative caption, one can readily use existing text-based image retrieval models to enhance CIR performance. Furthermore, we introduce both image-text contrastive loss and text prompt alignment loss to enforce the learning of suitable sentence-level prompts. Experiments show that our proposed method performs favorably against the state-of-the-art CIR methods on the Fashion-IQ and CIRR datasets. The source code and pretrained model are publicly available at https://github.com/chunmeifeng/SPRC

Universal domain adaptation (UniDA) aims to address domain and category shifts across data sources. Recently, due to more stringent data restrictions, researchers have introduced source-free UniDA (SF-UniDA). SF-UniDA methods eliminate the need for direct access to source samples when performing adaptation to the target domain. However, existing SF-UniDA methods still require an extensive quantity of labeled source samples to train a source model, resulting in significant labeling costs. To tackle this issue, we present a novel plug-and-play classifier-oriented calibration (COCA) method. COCA, which exploits textual prototypes, is designed for the source models based on few-shot learning with vision-language models (VLMs). It endows the VLM-powered few-shot learners, which are built for closed-set classification, with the unknown-aware ability to distinguish common and unknown classes in the SF-UniDA scenario. Crucially, COCA is a new paradigm to tackle SF-UniDA challenges based on VLMs, which focuses on classifier instead of image encoder optimization. Experiments show that COCA outperforms state-of-the-art UniDA and SF-UniDA models.

Masked Autoencoders (MAE) play a pivotal role in learning potent representations, delivering outstanding results across various 3D perception tasks essential for autonomous driving. In real-world driving scenarios, it's commonplace to deploy multiple sensors for comprehensive environment perception. Despite integrating multi-modal features from these sensors can produce rich and powerful features, there is a noticeable challenge in MAE methods addressing this integration due to the substantial disparity between the different modalities. This research delves into multi-modal Masked Autoencoders tailored for a unified representation space in autonomous driving, aiming to pioneer a more efficient fusion of two distinct modalities. To intricately marry the semantics inherent in images with the geometric intricacies of LiDAR point clouds, we propose UniM$^2$AE. This model stands as a potent yet straightforward, multi-modal self-supervised pre-training framework, mainly consisting of two designs. First, it projects the features from both modalities into a cohesive 3D volume space to intricately marry the bird's eye view (BEV) with the height dimension. The extension allows for a precise representation of objects and reduces information loss when aligning multi-modal features. Second, the Multi-modal 3D Interactive Module (MMIM) is invoked to facilitate the efficient inter-modal interaction during the interaction process. Extensive experiments conducted on the nuScenes Dataset attest to the efficacy of UniM$^2$AE, indicating enhancements in 3D object detection and BEV map segmentation by 1.2\% NDS and 6.5\% mIoU, respectively. The code is available at https://github.com/hollow-503/UniM2AE., Comment: Code available at https://github.com/hollow-503/UniM2AE

Federated Learning (FL) enables multiple clients to collaboratively learn in a distributed way, allowing for privacy protection. However, the real-world non-IID data will lead to client drift which degrades the performance of FL. Interestingly, we find that the difference in logits between the local and global models increases as the model is continuously updated, thus seriously deteriorating FL performance. This is mainly due to catastrophic forgetting caused by data heterogeneity between clients. To alleviate this problem, we propose a new algorithm, named FedCSD, a Class prototype Similarity Distillation in a federated framework to align the local and global models. FedCSD does not simply transfer global knowledge to local clients, as an undertrained global model cannot provide reliable knowledge, i.e., class similarity information, and its wrong soft labels will mislead the optimization of local models. Concretely, FedCSD introduces a class prototype similarity distillation to align the local logits with the refined global logits that are weighted by the similarity between local logits and the global prototype. To enhance the quality of global logits, FedCSD adopts an adaptive mask to filter out the terrible soft labels of the global models, thereby preventing them to mislead local optimization. Extensive experiments demonstrate the superiority of our method over the state-of-the-art federated learning approaches in various heterogeneous settings. The source code will be released., Comment: 11 pages, 7 figures

While multi-modal learning has been widely used for MRI reconstruction, it relies on paired multi-modal data which is difficult to acquire in real clinical scenarios. Especially in the federated setting, the common situation is that several medical institutions only have single-modal data, termed the modality missing issue. Therefore, it is infeasible to deploy a standard federated learning framework in such conditions. In this paper, we propose a novel communication-efficient federated learning framework, namely Fed-PMG, to address the missing modality challenge in federated multi-modal MRI reconstruction. Specifically, we utilize a pseudo modality generation mechanism to recover the missing modality for each single-modal client by sharing the distribution information of the amplitude spectrum in frequency space. However, the step of sharing the original amplitude spectrum leads to heavy communication costs. To reduce the communication cost, we introduce a clustering scheme to project the set of amplitude spectrum into finite cluster centroids, and share them among the clients. With such an elaborate design, our approach can effectively complete the missing modality within an acceptable communication cost. Extensive experiments demonstrate that our proposed method can attain similar performance with the ideal scenario, i.e., all clients have the full set of modalities. The source code will be released., Comment: 10 pages, 5 figures

Federated learning (FL) is a distributed learning paradigm that enables multiple clients to learn a powerful global model by aggregating local training. However, the performance of the global model is often hampered by non-i.i.d. distribution among the clients, requiring extensive efforts to mitigate inter-client data heterogeneity. Going beyond inter-client data heterogeneity, we note that intra-client heterogeneity can also be observed on complex real-world data and seriously deteriorate FL performance. In this paper, we present a novel FL algorithm, i.e., FedIns, to handle intra-client data heterogeneity by enabling instance-adaptive inference in the FL framework. Instead of huge instance-adaptive models, we resort to a parameter-efficient fine-tuning method, i.e., scale and shift deep features (SSF), upon a pre-trained model. Specifically, we first train an SSF pool for each client, and aggregate these SSF pools on the server side, thus still maintaining a low communication cost. To enable instance-adaptive inference, for a given instance, we dynamically find the best-matched SSF subsets from the pool and aggregate them to generate an adaptive SSF specified for the instance, thereby reducing the intra-client as well as the inter-client heterogeneity. Extensive experiments show that our FedIns outperforms state-of-the-art FL algorithms, e.g., a 6.64\% improvement against the top-performing method with less than 15\% communication cost on Tiny-ImageNet. Our code and models will be publicly released., Comment: Proceedings of the IEEE/CVF International Conference on Computer Vision 2023

Benefiting from prompt tuning, recent years have witnessed the promising performance of pre-trained vision-language models, e.g., CLIP, on versatile downstream tasks. In this paper, we focus on a particular setting of learning adaptive prompts on the fly for each test sample from an unseen new domain, which is known as test-time prompt tuning (TPT). Existing TPT methods typically rely on data augmentation and confidence selection. However, conventional data augmentation techniques, e.g., random resized crops, suffers from the lack of data diversity, while entropy-based confidence selection alone is not sufficient to guarantee prediction fidelity. To address these issues, we propose a novel TPT method, named DiffTPT, which leverages pre-trained diffusion models to generate diverse and informative new data. Specifically, we incorporate augmented data by both conventional method and pre-trained stable diffusion to exploit their respective merits, improving the models ability to adapt to unknown new test data. Moreover, to ensure the prediction fidelity of generated data, we introduce a cosine similarity-based filtration technique to select the generated data with higher similarity to the single test sample. Our experiments on test datasets with distribution shifts and unseen categories demonstrate that DiffTPT improves the zero-shot accuracy by an average of 5.13\% compared to the state-of-the-art TPT method. Our code and models will be publicly released., Comment: Proceedings of the IEEE/CVF International Conference on Computer Vision 2023

Federated Magnetic Resonance Imaging (MRI) reconstruction enables multiple hospitals to collaborate distributedly without aggregating local data, thereby protecting patient privacy. However, the data heterogeneity caused by different MRI protocols, insufficient local training data, and limited communication bandwidth inevitably impair global model convergence and updating. In this paper, we propose a new algorithm, FedPR, to learn federated visual prompts in the null space of global prompt for MRI reconstruction. FedPR is a new federated paradigm that adopts a powerful pre-trained model while only learning and communicating the prompts with few learnable parameters, thereby significantly reducing communication costs and achieving competitive performance on limited local data. Moreover, to deal with catastrophic forgetting caused by data heterogeneity, FedPR also updates efficient federated visual prompts that project the local prompts into an approximate null space of the global prompt, thereby suppressing the interference of gradients on the server performance. Extensive experiments on federated MRI show that FedPR significantly outperforms state-of-the-art FL algorithms with <6% of communication costs when given the limited amount of local training data., Comment: 8 pages, Proceedings of the IEEE/CVF International Conference on Computer Vision

Federated learning (FL), as an effective decentralized distributed learning approach, enables multiple institutions to jointly train a model without sharing their local data. However, the domain feature shift caused by different acquisition devices/clients substantially degrades the performance of the FL model. Furthermore, most existing FL approaches aim to improve accuracy without considering reliability (e.g., confidence or uncertainty). The predictions are thus unreliable when deployed in safety-critical applications. Therefore, aiming at improving the performance of FL in non-Domain feature issues while enabling the model more reliable. In this paper, we propose a novel reliable federated disentangling network, termed RFedDis, which utilizes feature disentangling to enable the ability to capture the global domain-invariant cross-client representation and preserve local client-specific feature learning. Meanwhile, to effectively integrate the decoupled features, an uncertainty-aware decision fusion is also introduced to guide the network for dynamically integrating the decoupled features at the evidence level, while producing a reliable prediction with an estimated uncertainty. To the best of our knowledge, our proposed RFedDis is the first work to develop an FL approach based on evidential uncertainty combined with feature disentangling, which enhances the performance and reliability of FL in non-IID domain features. Extensive experimental results show that our proposed RFedDis provides outstanding performance with a high degree of reliability as compared to other state-of-the-art FL approaches.

Video super-resolution (VSR) aiming to reconstruct a high-resolution (HR) video from its low-resolution (LR) counterpart has made tremendous progress in recent years. However, it remains challenging to deploy existing VSR methods to real-world data with complex degradations. On the one hand, there are few well-aligned real-world VSR datasets, especially with large super-resolution scale factors, which limits the development of real-world VSR tasks. On the other hand, alignment algorithms in existing VSR methods perform poorly for real-world videos, leading to unsatisfactory results. As an attempt to address the aforementioned issues, we build a real-world 4 VSR dataset, namely MVSR4$\times$, where low- and high-resolution videos are captured with different focal length lenses of a smartphone, respectively. Moreover, we propose an effective alignment method for real-world VSR, namely EAVSR. EAVSR takes the proposed multi-layer adaptive spatial transform network (MultiAdaSTN) to refine the offsets provided by the pre-trained optical flow estimation network. Experimental results on RealVSR and MVSR4$\times$ datasets show the effectiveness and practicality of our method, and we achieve state-of-the-art performance in real-world VSR task. The dataset and code will be publicly available.

Focusing on the complicated pathological features, such as blurred boundaries, severe scale differences between symptoms, background noise interference, etc., in the task of retinal edema lesions joint segmentation from OCT images and enabling the segmentation results more reliable. In this paper, we propose a novel reliable multi-scale wavelet-enhanced transformer network, which can provide accurate segmentation results with reliability assessment. Specifically, aiming at improving the model's ability to learn the complex pathological features of retinal edema lesions in OCT images, we develop a novel segmentation backbone that integrates a wavelet-enhanced feature extractor network and a multi-scale transformer module of our newly designed. Meanwhile, to make the segmentation results more reliable, a novel uncertainty segmentation head based on the subjective logical evidential theory is introduced to generate the final segmentation results with a corresponding overall uncertainty evaluation score map. We conduct comprehensive experiments on the public database of AI-Challenge 2018 for retinal edema lesions segmentation, and the results show that our proposed method achieves better segmentation accuracy with a high degree of reliability as compared to other state-of-the-art segmentation approaches. The code will be released on: https://github.com/LooKing9218/ReliableRESeg., Comment: Improving algorithm

Open-set semi-supervised learning (OSSL) has attracted growing interest, which investigates a more practical scenario where out-of-distribution (OOD) samples are only contained in unlabeled data. Existing OSSL methods like OpenMatch learn an OOD detector to identify outliers, which often update all modal parameters (i.e., full fine-tuning) to propagate class information from labeled data to unlabeled ones. Currently, prompt learning has been developed to bridge gaps between pre-training and fine-tuning, which shows higher computational efficiency in several downstream tasks. In this paper, we propose a prompt-driven efficient OSSL framework, called OpenPrompt, which can propagate class information from labeled to unlabeled data with only a small number of trainable parameters. We propose a prompt-driven joint space learning mechanism to detect OOD data by maximizing the distribution gap between ID and OOD samples in unlabeled data, thereby our method enables the outliers to be detected in a new way. The experimental results on three public datasets show that OpenPrompt outperforms state-of-the-art methods with less than 1% of trainable parameters. More importantly, OpenPrompt achieves a 4% improvement in terms of AUROC on outlier detection over a fully supervised model on CIFAR10.

Federated learning (FL) can be used to improve data privacy and efficiency in magnetic resonance (MR) image reconstruction by enabling multiple institutions to collaborate without needing to aggregate local data. However, the domain shift caused by different MR imaging protocols can substantially degrade the performance of FL models. Recent FL techniques tend to solve this by enhancing the generalization of the global model, but they ignore the domain-specific features, which may contain important information about the device properties and be useful for local reconstruction. In this paper, we propose a specificity-preserving FL algorithm for MR image reconstruction (FedMRI). The core idea is to divide the MR reconstruction model into two parts: a globally shared encoder to obtain a generalized representation at the global level, and a client-specific decoder to preserve the domain-specific properties of each client, which is important for collaborative reconstruction when the clients have unique distribution. Such scheme is then executed in the frequency space and the image space respectively, allowing exploration of generalized representation and client-specific properties simultaneously in different spaces. Moreover, to further boost the convergence of the globally shared encoder when a domain shift is present, a weighted contrastive regularization is introduced to directly correct any deviation between the client and server during optimization. Extensive experiments demonstrate that our FedMRI's reconstructed results are the closest to the ground-truth for multi-institutional data, and that it outperforms state-of-the-art FL methods., Comment: 12 pages, 8 figures Code: https://github.com/chunmeifeng/FedMRI

Magnetic resonance (MR) imaging produces detailed images of organs and tissues with better contrast, but it suffers from a long acquisition time, which makes the image quality vulnerable to say motion artifacts. Recently, many approaches have been developed to reconstruct full-sampled images from partially observed measurements to accelerate MR imaging. However, most approaches focused on reconstruction over a single modality, neglecting the discovery of correlation knowledge between the different modalities. Here we propose a Multi-modal Aggregation network for mR Image recOnstruction with auxiliary modality (MARIO), which is capable of discovering complementary representations from a fully sampled auxiliary modality, with which to hierarchically guide the reconstruction of a given target modality. This implies that our method can selectively aggregate multi-modal representations for better reconstruction, yielding comprehensive, multi-scale, multi-modal feature fusion. Extensive experiments on IXI and fastMRI datasets demonstrate the superiority of the proposed approach over state-of-the-art MR image reconstruction methods in removing artifacts.

Super-resolving the Magnetic Resonance (MR) image of a target contrast under the guidance of the corresponding auxiliary contrast, which provides additional anatomical information, is a new and effective solution for fast MR imaging. However, current multi-contrast super-resolution (SR) methods tend to concatenate different contrasts directly, ignoring their relationships in different clues, e.g., in the high-intensity and low-intensity regions. In this study, we propose a separable attention network (comprising high-intensity priority attention and low-intensity separation attention), named SANet. Our SANet could explore the areas of high-intensity and low-intensity regions in the "forward" and "reverse" directions with the help of the auxiliary contrast, while learning clearer anatomical structure and edge information for the SR of a target-contrast MR image. SANet provides three appealing benefits: (1) It is the first model to explore a separable attention mechanism that uses the auxiliary contrast to predict the high-intensity and low-intensity regions regions, diverting more attention to refining any uncertain details between these regions and correcting the fine areas in the reconstructed results. (2) A multi-stage integration module is proposed to learn the response of multi-contrast fusion at multiple stages, get the dependency between the fused representations, and boost their representation ability. (3) Extensive experiments with various state-of-the-art multi-contrast SR methods on fastMRI and clinical \textit{in vivo} datasets demonstrate the superiority of our model., Comment: arXiv admin note: text overlap with arXiv:2105.08949 https://github.com/chunmeifeng/SANet

Accelerated multi-modal magnetic resonance (MR) imaging is a new and effective solution for fast MR imaging, providing superior performance in restoring the target modality from its undersampled counterpart with guidance from an auxiliary modality. However, existing works simply combine the auxiliary modality as prior information, lacking in-depth investigations on the potential mechanisms for fusing different modalities. Further, they usually rely on the convolutional neural networks (CNNs), which is limited by the intrinsic locality in capturing the long-distance dependency. To this end, we propose a multi-modal transformer (MTrans), which is capable of transferring multi-scale features from the target modality to the auxiliary modality, for accelerated MR imaging. To capture deep multi-modal information, our MTrans utilizes an improved multi-head attention mechanism, named cross attention module, which absorbs features from the auxiliary modality that contribute to the target modality. Our framework provides three appealing benefits: (i) Our MTrans use an improved transformers for multi-modal MR imaging, affording more global information compared with existing CNN-based methods. (ii) A new cross attention module is proposed to exploit the useful information in each modality at different scales. The small patch in the target modality aims to keep more fine details, the large patch in the auxiliary modality aims to obtain high-level context features from the larger region and supplement the target modality effectively. (iii) We evaluate MTrans with various accelerated multi-modal MR imaging tasks, e.g., MR image reconstruction and super-resolution, where MTrans outperforms state-of-the-art methods on fastMRI and real-world clinical datasets., Comment: https://github.com/chunmeifeng/MTrans

The core problem of Magnetic Resonance Imaging (MRI) is the trade off between acceleration and image quality. Image reconstruction and super-resolution are two crucial techniques in Magnetic Resonance Imaging (MRI). Current methods are designed to perform these tasks separately, ignoring the correlations between them. In this work, we propose an end-to-end task transformer network (T$^2$Net) for joint MRI reconstruction and super-resolution, which allows representations and feature transmission to be shared between multiple task to achieve higher-quality, super-resolved and motion-artifacts-free images from highly undersampled and degenerated MRI data. Our framework combines both reconstruction and super-resolution, divided into two sub-branches, whose features are expressed as queries and keys. Specifically, we encourage joint feature learning between the two tasks, thereby transferring accurate task information. We first use two separate CNN branches to extract task-specific features. Then, a task transformer module is designed to embed and synthesize the relevance between the two tasks. Experimental results show that our multi-task model significantly outperforms advanced sequential methods, both quantitatively and qualitatively.

Super-resolution (SR) plays a crucial role in improving the image quality of magnetic resonance imaging (MRI). MRI produces multi-contrast images and can provide a clear display of soft tissues. However, current super-resolution methods only employ a single contrast, or use a simple multi-contrast fusion mechanism, ignoring the rich relations among different contrasts, which are valuable for improving SR. In this work, we propose a multi-stage integration network (i.e., MINet) for multi-contrast MRI SR, which explicitly models the dependencies between multi-contrast images at different stages to guide image SR. In particular, our MINet first learns a hierarchical feature representation from multiple convolutional stages for each of different-contrast image. Subsequently, we introduce a multi-stage integration module to mine the comprehensive relations between the representations of the multi-contrast images. Specifically, the module matches each representation with all other features, which are integrated in terms of their similarities to obtain an enriched representation. Extensive experiments on fastMRI and real-world clinical datasets demonstrate that 1) our MINet outperforms state-of-the-art multi-contrast SR methods in terms of various metrics and 2) our multi-stage integration module is able to excavate complex interactions among multi-contrast features at different stages, leading to improved target-image quality., Comment: 10 pages, 3 figures

Magnetic resonance (MR) image acquisition is an inherently prolonged process, whose acceleration has long been the subject of research. This is commonly achieved by obtaining multiple undersampled images, simultaneously, through parallel imaging. In this paper, we propose the Dual-Octave Network (DONet), which is capable of learning multi-scale spatial-frequency features from both the real and imaginary components of MR data, for fast parallel MR image reconstruction. More specifically, our DONet consists of a series of Dual-Octave convolutions (Dual-OctConv), which are connected in a dense manner for better reuse of features. In each Dual-OctConv, the input feature maps and convolutional kernels are first split into two components (ie, real and imaginary), and then divided into four groups according to their spatial frequencies. Then, our Dual-OctConv conducts intra-group information updating and inter-group information exchange to aggregate the contextual information across different groups. Our framework provides three appealing benefits: (i) It encourages information interaction and fusion between the real and imaginary components at various spatial frequencies to achieve richer representational capacity. (ii) The dense connections between the real and imaginary groups in each Dual-OctConv make the propagation of features more efficient by feature reuse. (iii) DONet enlarges the receptive field by learning multiple spatial-frequency features of both the real and imaginary components. Extensive experiments on two popular datasets (ie, clinical knee and fastMRI), under different undersampling patterns and acceleration factors, demonstrate the superiority of our model in accelerated parallel MR image reconstruction., Comment: arXiv admin note: substantial text overlap with arXiv:2104.05345

Magnetic resonance (MR) image acquisition is an inherently prolonged process, whose acceleration by obtaining multiple undersampled images simultaneously through parallel imaging has always been the subject of research. In this paper, we propose the Dual-Octave Convolution (Dual-OctConv), which is capable of learning multi-scale spatial-frequency features from both real and imaginary components, for fast parallel MR image reconstruction. By reformulating the complex operations using octave convolutions, our model shows a strong ability to capture richer representations of MR images, while at the same time greatly reducing the spatial redundancy. More specifically, the input feature maps and convolutional kernels are first split into two components (i.e., real and imaginary), which are then divided into four groups according to their spatial frequencies. Then, our Dual-OctConv conducts intra-group information updating and inter-group information exchange to aggregate the contextual information across different groups. Our framework provides two appealing benefits: (i) it encourages interactions between real and imaginary components at various spatial frequencies to achieve richer representational capacity, and (ii) it enlarges the receptive field by learning multiple spatial-frequency features of both the real and imaginary components. We evaluate the performance of the proposed model on the acceleration of multi-coil MR image reconstruction. Extensive experiments are conducted on an {in vivo} knee dataset under different undersampling patterns and acceleration factors. The experimental results demonstrate the superiority of our model in accelerated parallel MR image reconstruction. Our code is available at: github.com/chunmeifeng/Dual-OctConv., Comment: Proceedings of the 35th AAAI Conference on Artificial Intelligence (AAAI) 2021

Magnetic Resonance Imaging(MRI) has been widely used in clinical application and pathology research by helping doctors make more accurate diagnoses. On the other hand, accurate diagnosis by MRI remains a great challenge as images obtained via present MRI techniques usually have low resolutions. Improving MRI image quality and resolution thus becomes a critically important task. This paper presents an innovative Coupled-Projection Residual Network (CPRN) for MRI super-resolution. The CPRN consists of two complementary sub-networks: a shallow network and a deep network that keep the content consistency while learning high frequency differences between low-resolution and high-resolution images. The shallow sub-network employs coupled-projection for better retaining the MRI image details, where a novel feedback mechanism is introduced to guide the reconstruction of high-resolution images. The deep sub-network learns from the residuals of the high-frequency image information, where multiple residual blocks are cascaded to magnify the MRI images at the last network layer. Finally, the features from the shallow and deep sub-networks are fused for the reconstruction of high-resolution MRI images. For effective fusion of features from the deep and shallow sub-networks, a step-wise connection (CPRN S) is designed as inspired by the human cognitive processes (from simple to complex). Experiments over three public MRI datasets show that our proposed CPRN achieves superior MRI super-resolution performance as compared with the state-of-the-art. Our source code will be publicly available at http://www.yongxu.org/lunwen.html., Comment: Our source code will be publicly available at http://www.yongxu.org/lunwen.html

Sparse Representation (SR) techniques encode the test samples into a sparse linear combination of all training samples and then classify the test samples into the class with the minimum residual. The classification of SR techniques depends on the representation capability on the test samples. However, most of these models view the representation problem of the test samples as a deterministic problem, ignoring the uncertainty of the representation. The uncertainty is caused by two factors, random noise in the samples and the intrinsic randomness of the sample set, which means that if we capture a group of samples, the obtained set of samples will be different in different conditions. In this paper, we propose a novel method based upon Collaborative Representation that is a special instance of SR and has closed-form solution. It performs Sparse Representation Fusion based on the Diverse Subset of training samples (SRFDS), which reduces the impact of randomness of the sample set and enhances the robustness of classification results. The proposed method is suitable for multiple types of data and has no requirement on the pattern type of the tasks. In addition, SRFDS not only preserves a closed-form solution but also greatly improves the classification performance. Promising results on various datasets serve as the evidence of better performance of SRFDS than other SR-based methods. The Matlab code of SRFDS will be accessible at http://www.yongxu.org/lunwen.html.

Principal Component Analysis (PCA) has been used to study the pathogenesis of diseases. To enhance the interpretability of classical PCA, various improved PCA methods have been proposed to date. Among these, a typical method is the so-called sparse PCA, which focuses on seeking sparse loadings. However, the performance of these methods is still far from satisfactory due to their limitation of using unsupervised learning methods; moreover, the class ambiguity within the sample is high. To overcome this problem, this study developed a new PCA method, which is named the Supervised Discriminative Sparse PCA (SDSPCA). The main innovation of this method is the incorporation of discriminative information and sparsity into the PCA model. Specifically, in contrast to the traditional sparse PCA, which imposes sparsity on the loadings, here, sparse components are obtained to represent the data. Furthermore, via linear transformation, the sparse components approximate the given label information. On the one hand, sparse components improve interpretability over traditional PCA, while on the other hand, they are have discriminative abilities suitable for classification purposes. A simple algorithm is developed and its convergence proof is provided. The SDSPCA has been applied to common characteristic gene selection (com-characteristic gene) and tumor classification on multi-view biological data. The sparsity and classification performance of the SDSPCA are empirically verified via abundant, reasonable, and effective experiments, and the obtained results demonstrate that SDSPCA outperforms other state-of-the-art methods., Comment: This paper has been published on TNNLS

In the context of cancer, internal "checkerboard" structures are normally found in the matrices of gene expression data, which correspond to genes that are significantly up- or down-regulated in patients with specific types of tumors. In this paper, we propose a novel method, called dual graph-regularization principal component analysis (DGPCA). The main innovation of this method is that it simultaneously considers the internal geometric structures of the condition manifold and the gene manifold. Specifically, we obtain principal components (PCs) to represent the data and approximate the cluster membership indicators through Laplacian embedding. This new method is endowed with internal geometric structures, such as the condition manifold and gene manifold, which are both suitable for bi-clustering. A closed-form solution is provided for DGPCA. We apply this new method to simultaneously cluster genes and conditions (e.g., different samples) with the aim of finding internal "checkerboard" structures on gene expression data, if they exist. Then, we use this new method to identify regulatory genes under the particular conditions and to compare the results with those of other state-of-the-art PCA-based methods. Promising results on gene expression data have been verified by extensive experiments, Comment: This manuscript was submitted in IEEE Transaction on Knowledge and Data Engineering on 12/01/2017. 9 pages, 3 figures