Selective Aggregation for Low-Rank Adaptation in Federated Learning

We investigate LoRA in federated learning through the lens of the asymmetry analysis of the learned $A$ and $B$ matrices. In doing so, we uncover that $A$ matrices are responsible for learning general knowledge, while $B$ matrices focus on capturing client-specific knowledge. Based on this finding, we introduce Federated Share-A Low-Rank Adaptation (FedSA-LoRA), which employs two low-rank trainable matrices $A$ and $B$ to model the weight update, but only $A$ matrices are shared with the server for aggregation. Moreover, we delve into the relationship between the learned $A$ and $B$ matrices in other LoRA variants, such as rsLoRA and VeRA, revealing a consistent pattern. Consequently, we extend our FedSA-LoRA method to these LoRA variants, resulting in FedSA-rsLoRA and FedSA-VeRA. In this way, we establish a general paradigm for integrating LoRA with FL, offering guidance for future work on subsequent LoRA variants combined with FL. Extensive experimental results on natural language understanding and generation tasks demonstrate the effectiveness of the proposed method.

See Detail Say Clear: Towards Brain CT Report Generation via Pathological Clue-driven Representation Learning

Brain CT report generation is significant to aid physicians in diagnosing cranial diseases. Recent studies concentrate on handling the consistency between visual and textual pathological features to improve the coherence of report. However, there exist some challenges: 1) Redundant visual representing: Massive irrelevant areas in 3D scans distract models from representing salient visual contexts. 2) Shifted semantic representing: Limited medical corpus causes difficulties for models to transfer the learned textual representations to generative layers. This study introduces a Pathological Clue-driven Representation Learning (PCRL) model to build cross-modal representations based on pathological clues and naturally adapt them for accurate report generation. Specifically, we construct pathological clues from perspectives of segmented regions, pathological entities, and report themes, to fully grasp visual pathological patterns and learn cross-modal feature representations. To adapt the representations for the text generation task, we bridge the gap between representation learning and report generation by using a unified large language model (LLM) with task-tailored instructions. These crafted instructions enable the LLM to be flexibly fine-tuned across tasks and smoothly transfer the semantic representation for report generation. Experiments demonstrate that our method outperforms previous methods and achieves SoTA performance. Our code is available at https://github.com/Chauncey-Jheng/PCRL-MRG.

Unleashing the Potential of SAM for Medical Adaptation via Hierarchical Decoding

The Segment Anything Model (SAM) has garnered significant attention for its versatile segmentation abilities and intuitive prompt-based interface. However, its application in medical imaging presents challenges, requiring either substantial training costs and extensive medical datasets for full model fine-tuning or high-quality prompts for optimal performance. This paper introduces H-SAM: a prompt-free adaptation of SAM tailored for efficient fine-tuning of medical images via a two-stage hierarchical decoding procedure. In the initial stage, H-SAM employs SAM's original decoder to generate a prior probabilistic mask, guiding a more intricate decoding process in the second stage. Specifically, we propose two key designs: 1) A class-balanced, mask-guided self-attention mechanism addressing the unbalanced label distribution, enhancing image embedding; 2) A learnable mask cross-attention mechanism spatially modulating the interplay among different image regions based on the prior mask. Moreover, the inclusion of a hierarchical pixel decoder in H-SAM enhances its proficiency in capturing fine-grained and localized details. This approach enables SAM to effectively integrate learned medical priors, facilitating enhanced adaptation for medical image segmentation with limited samples. Our H-SAM demonstrates a 4.78% improvement in average Dice compared to existing prompt-free SAM variants for multi-organ segmentation using only 10% of 2D slices. Notably, without using any unlabeled data, H-SAM even outperforms state-of-the-art semi-supervised models relying on extensive unlabeled training data across various medical datasets. Our code is available at https://github.com/Cccccczh404/H-SAM.

Exploring Self- and Cross-Triplet Correlations for Human-Object Interaction Detection

Human-Object Interaction (HOI) detection plays a vital role in scene understanding, which aims to predict the HOI triplet in the form of <human, object, action>. Existing methods mainly extract multi-modal features (e.g., appearance, object semantics, human pose) and then fuse them together to directly predict HOI triplets. However, most of these methods focus on seeking for self-triplet aggregation, but ignore the potential cross-triplet dependencies, resulting in ambiguity of action prediction. In this work, we propose to explore Self- and Cross-Triplet Correlations (SCTC) for HOI detection. Specifically, we regard each triplet proposal as a graph where Human, Object represent nodes and Action indicates edge, to aggregate self-triplet correlation. Also, we try to explore cross-triplet dependencies by jointly considering instance-level, semantic-level, and layout-level relations. Besides, we leverage the CLIP model to assist our SCTC obtain interaction-aware feature by knowledge distillation, which provides useful action clues for HOI detection. Extensive experiments on HICO-DET and V-COCO datasets verify the effectiveness of our proposed SCTC.

DEFN: Dual-Encoder Fourier Group Harmonics Network for Three-Dimensional Macular Hole Reconstruction with Stochastic Retinal Defect Augmentation and Dynamic Weight Composition

The spatial and quantitative parameters of macular holes are vital for diagnosis, surgical choices, and post-op monitoring. Macular hole diagnosis and treatment rely heavily on spatial and quantitative data, yet the scarcity of such data has impeded the progress of deep learning techniques for effective segmentation and real-time 3D reconstruction. To address this challenge, we assembled the world's largest macular hole dataset, Retinal OCTfor Macular Hole Enhancement (ROME-3914), and a Comprehensive Archive for Retinal Segmentation (CARS-30k), both expertly annotated. In addition, we developed an innovative 3D segmentation network, the Dual-Encoder FuGH Network (DEFN), which integrates three innovative modules: Fourier Group Harmonics (FuGH), Simplified 3D Spatial Attention (S3DSA) and Harmonic Squeeze-and-Excitation Module (HSE). These three modules synergistically filter noise, reduce computational complexity, emphasize detailed features, and enhance the network's representation ability. We also proposed a novel data augmentation method, Stochastic Retinal Defect Injection (SRDI), and a network optimization strategy DynamicWeightCompose (DWC), to further improve the performance of DEFN. Compared with 13 baselines, our DEFN shows the best performance. We also offer precise 3D retinal reconstruction and quantitative metrics, bringing revolutionary diagnostic and therapeutic decision-making tools for ophthalmologists, and is expected to completely reshape the diagnosis and treatment patterns of difficult-to-treat macular degeneration. The source code is publicly available at: https://github.com/IIPL-HangzhouDianUniversity/DEFN-Pytorch.

FedConv: Enhancing Convolutional Neural Networks for Handling Data Heterogeneity in Federated Learning

Federated learning (FL) is an emerging paradigm in machine learning, where a shared model is collaboratively learned using data from multiple devices to mitigate the risk of data leakage. While recent studies posit that Vision Transformer (ViT) outperforms Convolutional Neural Networks (CNNs) in addressing data heterogeneity in FL, the specific architectural components that underpin this advantage have yet to be elucidated. In this paper, we systematically investigate the impact of different architectural elements, such as activation functions and normalization layers, on the performance within heterogeneous FL. Through rigorous empirical analyses, we are able to offer the first-of-its-kind general guidance on micro-architecture design principles for heterogeneous FL. Intriguingly, our findings indicate that with strategic architectural modifications, pure CNNs can achieve a level of robustness that either matches or even exceeds that of ViTs when handling heterogeneous data clients in FL. Additionally, our approach is compatible with existing FL techniques and delivers state-of-the-art solutions across a broad spectrum of FL benchmarks. The code is publicly available at https://github.com/UCSC-VLAA/FedConv

Residual Denoising Diffusion Models

Current diffusion-based image restoration methods feed degraded input images as conditions into the noise estimation network. However, interpreting this diffusion process is challenging since it essentially generates the target image from the noise. To establish a unified and more interpretable model for image generation and restoration, we propose residual denoising diffusion models (RDDM). In contrast to existing diffusion models (e.g., DDPM or DDIM) that focus solely on noise estimation, our RDDM predicts residuals to represent directional diffusion from the target domain to the input domain, while concurrently estimating noise to account for random perturbations in the diffusion process. The introduction of residuals allows us to redefine the forward diffusion process, wherein the target image progressively diffuses into a purely noisy image or a noise-carrying input image, thus unifying image generation and restoration. We demonstrate that our sampling process is consistent with that of DDPM and DDIM through coefficient transformation, and propose a partially path-independent generation process to better understand the reverse process. Notably, with native support for conditional inputs, our RDDM enables a generic UNet, trained with only an $\ell _1$ loss and a batch size of 1, to compete with state-of-the-art image restoration methods. We provide code and pre-trained models to encourage further exploration, application, and development of our innovative framework (https://github.com/nachifur/RDDM).

Spatiotemporal Modeling of Multivariate Signals With Graph Neural Networks and Structured State Space Models

Multivariate signals are prevalent in various domains, such as healthcare, transportation systems, and space sciences. Modeling spatiotemporal dependencies in multivariate signals is challenging due to (1) long-range temporal dependencies and (2) complex spatial correlations between sensors. To address these challenges, we propose representing multivariate signals as graphs and introduce GraphS4mer, a general graph neural network (GNN) architecture that captures both spatial and temporal dependencies in multivariate signals. Specifically, (1) we leverage Structured State Spaces model (S4), a state-of-the-art sequence model, to capture long-term temporal dependencies and (2) we propose a graph structure learning layer in GraphS4mer to learn dynamically evolving graph structures in the data. We evaluate our proposed model on three distinct tasks and show that GraphS4mer consistently improves over existing models, including (1) seizure detection from electroencephalography signals, outperforming a previous GNN with self-supervised pretraining by 3.1 points in AUROC; (2) sleep staging from polysomnography signals, a 4.1 points improvement in macro-F1 score compared to existing sleep staging models; and (3) traffic forecasting, reducing MAE by 8.8% compared to existing GNNs and by 1.4% compared to Transformer-based models.

Label-Efficient Self-Supervised Federated Learning for Tackling Data Heterogeneity in Medical Imaging

The curation of large-scale medical datasets from multiple institutions necessary for training deep learning models is challenged by the difficulty in sharing patient data with privacy-preserving. Federated learning (FL), a paradigm that enables privacy-protected collaborative learning among different institutions, is a promising solution to this challenge. However, FL generally suffers from performance deterioration due to heterogeneous data distributions across institutions and the lack of quality labeled data. In this paper, we present a robust and label-efficient self-supervised FL framework for medical image analysis. Specifically, we introduce a novel distributed self-supervised pre-training paradigm into the existing FL pipeline (i.e., pre-training the models directly on the decentralized target task datasets). Built upon the recent success of Vision Transformers, we employ masked image encoding tasks for self-supervised pre-training, to facilitate more effective knowledge transfer to downstream federated models. Extensive empirical results on simulated and real-world medical imaging federated datasets show that self-supervised pre-training largely benefits the robustness of federated models against various degrees of data heterogeneity. Notably, under severe data heterogeneity, our method, without relying on any additional pre-training data, achieves an improvement of 5.06%, 1.53% and 4.58% in test accuracy on retinal, dermatology and chest X-ray classification compared with the supervised baseline with ImageNet pre-training. Moreover, we show that our self-supervised FL algorithm generalizes well to out-of-distribution data and learns federated models more effectively in limited label scenarios, surpassing the supervised baseline by 10.36% and the semi-supervised FL method by 8.3% in test accuracy.

Masked Co-attentional Transformer reconstructs 100x ultra-fast/low-dose whole-body PET from longitudinal images and anatomically guided MRI

Despite its tremendous value for the diagnosis, treatment monitoring and surveillance of children with cancer, whole body staging with positron emission tomography (PET) is time consuming and associated with considerable radiation exposure. 100x (1% of the standard clinical dosage) ultra-low-dose/ultra-fast whole-body PET reconstruction has the potential for cancer imaging with unprecedented speed and improved safety, but it cannot be achieved by the naive use of machine learning techniques. In this study, we utilize the global similarity between baseline and follow-up PET and magnetic resonance (MR) images to develop Masked-LMCTrans, a longitudinal multi-modality co-attentional CNN-Transformer that provides interaction and joint reasoning between serial PET/MRs of the same patient. We mask the tumor area in the referenced baseline PET and reconstruct the follow-up PET scans. In this manner, Masked-LMCTrans reconstructs 100x almost-zero radio-exposure whole-body PET that was not possible before. The technique also opens a new pathway for longitudinal radiology imaging reconstruction, a significantly under-explored area to date. Our model was trained and tested with Stanford PET/MRI scans of pediatric lymphoma patients and evaluated externally on PET/MRI images from T\"ubingen University. The high image quality of the reconstructed 100x whole-body PET images resulting from the application of Masked-LMCTrans will substantially advance the development of safer imaging approaches and shorter exam-durations for pediatric patients, as well as expand the possibilities for frequent longitudinal monitoring of these patients by PET.