Contrastive Language-Image Pretraining (CLIP) has been widely used in vision tasks. Notably, CLIP has demonstrated promising performance in few-shot learning (FSL). However, existing CLIP-based methods in training-free FSL (i.e., without the requirement of additional training) mainly learn different modalities independently, leading to two essential issues: 1) severe anomalous match in image modality; 2) varying quality of generated text prompts. To address these issues, we build a mutual guidance mechanism, that introduces an Image-Guided-Text (IGT) component to rectify varying quality of text prompts through image representations, and a Text-Guided-Image (TGI) component to mitigate the anomalous match of image modality through text representations. By integrating IGT and TGI, we adopt a perspective of Text-Image Mutual guidance Optimization, proposing TIMO. Extensive experiments show that TIMO significantly outperforms the state-of-the-art (SOTA) training-free method. Additionally, by exploring the extent of mutual guidance, we propose an enhanced variant, TIMO-S, which even surpasses the best training-required methods by 0.33% with approximately ×100 less time cost.

To segment medical images with distribution shifts, domain generalization (DG) has emerged as a promising setting to train models on source domains that can generalize to unseen target domains. Existing DG methods are mainly based on CNN or ViT architectures. Recently, advanced state space models, represented by Mamba, have shown promising results in various supervised medical image segmentation. The success of Mamba is primarily owing to its ability to capture long-range dependencies while keeping linear complexity with input sequence length, making it a promising alternative to CNNs and ViTs. Inspired by the success, in the paper, we explore the potential of the Mamba architecture to address distribution shifts in DG for medical image segmentation. Specifically, we propose a novel Mamba-based framework, Mamba-Sea, incorporating global-to-local sequence augmentation to improve the model's generalizability under domain shift issues. Our Mamba-Sea introduces a global augmentation mechanism designed to simulate potential variations in appearance across different sites, aiming to suppress the model's learning of domain-specific information. At the local level, we propose a sequence-wise augmentation along input sequences, which perturbs the style of tokens within random continuous sub-sequences by modeling and resampling style statistics associated with domain shifts. To our best knowledge, Mamba-Sea is the first work to explore the generalization of Mamba for medical image segmentation, providing an advanced and promising Mamba-based architecture with strong robustness to domain shifts. Remarkably, our proposed method is the first to surpass a Dice coefficient of 90% on the Prostate dataset, which exceeds previous SOTA of 88.61%. The code is available at https://github.com/orange-czh/Mamba-Sea.

Domain Generalization (DG) aims to enable models to generalize to unseen target domains by learning from multiple source domains. Existing DG methods primarily rely on convolutional neural networks (CNNs), which inherently learn texture biases due to their limited receptive fields, making them prone to overfitting source domains. While some works have introduced transformer-based methods (ViTs) for DG to leverage the global receptive field, these methods incur high computational costs due to the quadratic complexity of self-attention. Recently, advanced state space models (SSMs), represented by Mamba, have shown promising results in supervised learning tasks by achieving linear complexity in sequence length during training and fast RNN-like computation during inference. Inspired by this, we investigate the generalization ability of the Mamba model under domain shifts and find that input-dependent matrices within SSMs could accumulate and amplify domain-specific features, thus hindering model generalization. To address this issue, we propose a novel SSM-based architecture with saliency-based token-aware transformation (namely START), which achieves state-of-the-art (SOTA) performances and offers a competitive alternative to CNNs and ViTs. Our START can selectively perturb and suppress domain-specific features in salient tokens within the input-dependent matrices of SSMs, thus effectively reducing the discrepancy between different domains. Extensive experiments on five benchmarks demonstrate that START outperforms existing SOTA DG methods with efficient linear complexity. Our code is available at https://github.com/lingeringlight/START.

Expression quantitative trait loci (eQTLs) are used to inform the mechanisms of transcriptional regulation in eukaryotic cells. However, the specificity of genome-wide eQTL identification is limited by stringent control for false discoveries. Here, we described a method based on the non-homogeneous Poisson process to identify 125 489 regions with highly frequent, multiple eQTL associations, or 'eQTL-hotspots', from the public database of 59 human tissues or cell types. We stratified the eQTL-hotspots into two classes with their distinct sequence and epigenomic characteristics. Based on these classifications, we developed a machine-learning model, E-SpotFinder, for augmented discovery of tissue- or cell-type-specific eQTL-hotspots. We applied this model to 36 tissues or cell types. Using augmented eQTL-hotspots, we recovered 655 402 eSNPs and reconstructed a comprehensive regulatory network of 2 725 380 cis-interactions among eQTL-hotspots. We further identified 52 012 modules representing transcriptional programs with unique functional backgrounds. In summary, our study provided a framework of epigenome-augmented eQTL analysis and thereby constructed comprehensive genome-wide networks of cis-regulations across diverse human tissues or cell types.

Domain generalization (DG) aims to enhance the model robustness against domain shifts without accessing target domains. A prevalent category of methods for DG is data augmentation, which focuses on generating virtual samples to simulate domain shifts. However, existing augmentation techniques in DG are mainly tailored for convolutional neural networks (CNNs), with limited exploration in token-based architectures, i.e., vision transformer (ViT) and multi-layer perceptrons (MLP) models. In this paper, we study the impact of prior CNN-based augmentation methods on token-based models, revealing their performance is suboptimal due to the lack of incentivizing the model to learn holistic shape information. To tackle the issue, we propose the Semantic-aware Edge-guided Token Augmentation (SETA) method. SETA transforms token features by perturbing local edge cues while preserving global shape features, thereby enhancing the model learning of shape information. To further enhance the generalization ability of the model, we introduce two stylized variants of our method combined with two state-of-the-art (SOTA) style augmentation methods in DG. We provide a theoretical insight into our method, demonstrating its effectiveness in reducing the generalization risk bound. Comprehensive experiments on five benchmarks prove that our method achieves SOTA performances across various ViT and MLP architectures. Our code is available at https://github.com/lingeringlight/SETA.

Domain generalization (DG) intends to train a model on multiple source domains to ensure that it can generalize well to an arbitrary unseen target domain. The acquisition of domain-invariant representations is pivotal for DG as they possess the ability to capture the inherent semantic information of the data, mitigate the influence of domain shift, and enhance the generalization capability of the model. Adopting multiple perspectives, such as the sample and the feature, proves to be effective. The sample perspective facilitates data augmentation through data manipulation techniques, whereas the feature perspective enables the extraction of meaningful generalization features. In this paper, we focus on improving the generalization ability of the model by compelling it to acquire domain-invariant representations from both the sample and feature perspectives by disentangling spurious correlations and enhancing potential correlations. 1) From the sample perspective, we develop a frequency restriction module, guiding the model to focus on the relevant correlations between object features and labels, thereby disentangling spurious correlations. 2) From the feature perspective, the simple Tail Interaction module implicitly enhances potential correlations among all samples from all source domains, facilitating the acquisition of domain-invariant representations across multiple domains for the model. The experimental results show that Convolutional Neural Networks (CNNs) or Multi-Layer Perceptrons (MLPs) with a strong baseline embedded with these two modules can achieve superior results, e.g., an average accuracy of 92.30% on Digits-DG. Source code is available at https://github.com/RubyHoho/DGeneralization.

Domain generalization (DG) aims to learn a generic model from multiple observed source domains that generalizes well to arbitrary unseen target domains without further training. The major challenge in DG is that the model inevitably faces a severe overfitting issue due to the domain gap between source and target domains. To mitigate this problem, some dropout-based methods have been proposed to resist overfitting by discarding part of the representation of the intermediate layers. However, we observe that most of these methods only conduct the dropout operation in some specific layers, leading to an insufficient regularization effect on the model. We argue that applying dropout at multiple layers can produce stronger regularization effects, which could alleviate the overfitting problem on source domains more adequately than previous layer-specific dropout methods. In this article, we develop a novel layer-wise and channel-wise dropout for DG, which randomly selects one layer and then randomly selects its channels to conduct dropout. Particularly, the proposed method can generate a variety of data variants to better deal with the overfitting issue. We also provide theoretical analysis for our dropout method and prove that it can effectively reduce the generalization error bound. Besides, we leverage the progressive scheme to increase the dropout ratio with the training progress, which can gradually boost the difficulty of training the model to enhance its robustness. Extensive experiments on three standard benchmark datasets have demonstrated that our method outperforms several state-of-the-art DG methods. Our code is available at https://github.com/lingeringlight/PLACEdropout .

Domain generalization (DG) aims to learn a model that generalizes well to unseen target domains utilizing multiple source domains without re-training. Most existing DG works are based on convolutional neural networks (CNNs). However, the local operation of the convolution kernel makes the model focus too much on local representations (e.g., texture), which inherently causes the model more prone to overfit to the source domains and hampers its generalization ability. Recently, several MLP-based methods have achieved promising results in supervised learning tasks by learning global interactions among different patches of the image. Inspired by this, in this paper, we first analyze the difference between CNN and MLP methods in DG and find that MLP methods exhibit a better generalization ability because they can better capture the global representations (e.g., structure) than CNN methods. Then, based on a recent lightweight MLP method, we obtain a strong baseline that outperforms most state-of-the-art CNN-based methods. The baseline can learn global structure representations with a filter to suppress structureirrelevant information in the frequency space. Moreover, we propose a dynAmic LOw-Frequency spectrum Transform (ALOFT) that can perturb local texture features while preserving global structure features, thus enabling the filter to remove structure-irrelevant information sufficiently. Extensive experiments on four benchmarks have demonstrated that our method can achieve great performance improvement with a small number of parameters compared to SOTA CNN-based DG methods. Our code is available at https://github.com/lingeringlight/ALOFT/.

Deep Neural Networks have exhibited considerable success in various visual tasks. However, when applied to unseen test datasets, state-of-the-art models often suffer performance degradation due to domain shifts. In this paper, we introduce a novel approach for domain generalization from a novel perspective of enhancing the robustness of channels in feature maps to domain shifts. We observe that models trained on source domains contain a substantial number of channels that exhibit unstable activations across different domains, which are inclined to capture domain-specific features and behave abnormally when exposed to unseen target domains. To address the issue, we propose a DomainDrop framework to continuously enhance the channel robustness to domain shifts, where a domain discriminator is used to identify and drop unstable channels in feature maps of each network layer during forward propagation. We theoretically prove that our framework could effectively lower the generalization bound. Extensive experiments on several benchmarks indicate that our framework achieves state-of-the-art performance compared to other competing methods. Our code is available at https://github.com/lingeringlight/DomainDrop.