MOTIVATION: Identifying non-coding RNAs (ncRNAs) associated with drug resistance is critical for elucidating molecular mechanisms underlying drug response, facilitating drug screening, and discovering novel therapeutic targets. While several graph neural network-based methods have been proposed to infer ncRNA-drug resistance associations, they remain fundamentally constrained by semantic distortion induced by a sparse bipartite network and neglect of relational semantics among molecular entities, ultimately compromising both predictive reliability and biological interpretability. RESULTS: In this study, we propose iNcRD-HG, a novel framework for identifying ncRNA-drug resistance associations. The framework addresses three critical aspects: constructing a context-enriched heterogeneous network that integrates six distinct molecular interaction types with bio-entity-specific attributes, developing a semantic-enhanced graph learning architecture that implements relation-type-aware message passing to capture complex contextual dependencies, and introducing an interpretability mechanism to reveal potential synergistic pathways underlying drug response. Experimental results demonstrate that iNcRD-HG achieves superior predictive performance across diverse benchmark datasets while deriving association features with strong discriminative capability. By identifying molecular synergistic contexts, iNcRD-HG provides mechanistically interpretable insights into ncRNA-mediated drug resistance. AVAILABILITY AND IMPLEMENTATION: Datasets and source codes are available at https://github.com/Biohang/iNcRD-HG.

Human action recognition (HAR), which aims to recognize and understand individual actions and intentions, has rapidly become a research hotspot in computer vision. Compared with other data modalities, skeleton data offers more efficient node semantics and more coherent spatio-temporal motion patterns, effectively reducing the impact of lighting and background changes. In recent years, many researchers have focused on skeleton-based action recognition methods and have made significant progress. However, we believe that the current skeleton-based action recognition methods still face three major challenges: 1) reducing reliance on expensive labeled data while maintaining model performance; 2) enabling the model to understand and recognize new behavior classes with a limited number of samples; and 3) addressing the challenges posed by the lack of skeleton information in single-modality spatio-temporal motion representation learning. Based on these challenges, we conduct a comprehensive review of the existing skeleton-based action recognition methods. Additionally, we provide an extensive review and analysis of publicly available action recognition datasets. This review aims to offer researchers a comprehensive perspective, stimulate more innovative ideas, and promote the application and breakthrough of skeleton action recognition in a wider range of computer vision tasks.

The acquisition of expert-annotated data remains a critical bottleneck for medical image segmentation, thereby constraining the clinical applicability of highly accurate models. Crucially, despite this scarcity of labeled data, the intrinsic homogeneity in human anatomy across the cohort provides a fundamental basis (or: a promising leverage point) for enhancing model generalization and training efficiency by exploiting inter-instance anatomical complementarity. In this study, we propose a novel semi-supervised approach for medical image segmentation that fully exploits this inter-instance complementarity. The proposed model operates at two levels, integrating a sophisticated copy-paste augmentation module (CPAM) and a trainable region calibration mechanism (TRCM) within the simple mean teacher (MT) framework. Specifically, CPAM is a carefully designed copy-paste strategy that facilitates the exchange of informative regions between samples, thereby enhancing the diversity and robustness of the training data. TRCM leverages the predictions from labeled regions to guide and calibrate the trainable regions in unlabeled data. The calibrated regions typically yield high-quality pseudo-labels, which effectively improve model training. CPAM and TRCM work synergistically, complementing each other to enhance model performance. Experiments on diverse medical image datasets-including LA, ACDC, BraTS2019, and Pancreas-NIH-covering both MRI and CT modalities demonstrate the robust efficacy of our proposed model. In settings with limited annotated data, the model consistently outperforms current state-of-the-art methods across multiple evaluation metrics. The code is available at https://github.com/shuaiaihang/shuaiAIMedcalLab.

An effective method for improving the object detection performance is to decrease the number of false positive (NFP) detection boxes and increase the number of true positive (NTP) detection boxes. In terms of the region-based object detection framework, an appropriate sample weighting strategy can help effectively achieve this goal without causing any inference efficiency loss. However, designing a suitable weighting method is not easy, and a reasonable guiding metric and comprehensive analysis are needed. This article directly sets the NFP and NTP as the evaluation metrics and examines how some preliminary weighting methods affect these two metrics. Based on the results of our analysis, we carefully design a simple yet effective sample weighting method, referred to as the interval normalization weighting strategy (INWS). Unlike some previous works, which only view sample losses as the weighting factor (e.g., focal losses), the INWS applies both the foreground score and the intersection over union (IoU) as the weighting factors. The INWS consists of two components: the IoU interval score normalization strategy (IISNS) for negative samples and the score interval IoU normalization strategy (SIINS) for positive samples. The IISNS can effectively decrease the NFP, and the SIINS is beneficial for increasing the NTP, especially under higher IoU thresholds. Furthermore, the INWS is convenient for application to most of the existing region-based object detection models. The experimental results on the mainstream benchmarks demonstrate that our INWS can achieve consistent improvements on various baselines.

MOTIVATION: Exploring potential associations between diseases can help in understanding pathological mechanisms of diseases and facilitating the discovery of candidate biomarkers and drug targets, thereby promoting disease diagnosis and treatment. Some computational methods have been proposed for measuring disease similarity. However, these methods describe diseases without considering their latent multi-molecule regulation and valuable supervision signal, resulting in limited biological interpretability and efficiency to capture association patterns. RESULTS: In this study, we propose a new computational method named DiSMVC. Different from existing predictors, DiSMVC designs a supervised graph collaborative framework to measure disease similarity. Multiple bio-entity associations related to genes and miRNAs are integrated via cross-view graph contrastive learning to extract informative disease representation, and then association pattern joint learning is implemented to compute disease similarity by incorporating phenotype-annotated disease associations. The experimental results show that DiSMVC can draw discriminative characteristics for disease pairs, and outperform other state-of-the-art methods. As a result, DiSMVC is a promising method for predicting disease associations with molecular interpretability. AVAILABILITY AND IMPLEMENTATION: Datasets and source codes are available at https://github.com/Biohang/DiSMVC.

Circular RNAs (circRNAs) are severing as important regulators for various physiological and pathological life activities. Identifying associations between circRNAs and diseases can help uncover the disease mechanism, and promote the diagnosis and treatment of human diseases. To provide assisting guidance and optimize biological experiments, some computational methods have been proposed to predict circRNA-disease associations. However, most predictors focus on identifying missing associations for known circRNA and diseases. It is still challenging to effectively detect potential circRNA-disease association pattern because of their limited generation ability and insufficient pair representation. In this regard, we propose a novel computational method named iCircDA-ENR for identifying circRNA-disease associations based on ensemble network representation. Different from other predictors, iCircDA-ENR is a ranking method. Multiple biological information and meta-paths are introduced to construct heterogeneous relation network, and then different network representation algorithms are incorporated into ranking framework to capture informative network features. The learned ranking predictor prioritizes the candidate diseases for query circRNAs according to their relevance degree. Experimental results illustrate that iCircDA-ENR achieves better performance and wider applicability, benefited from its sufficient representation and effective learning.

Objects often have different appearances because of viewpoint changes or part deformation. How to reasonably model these variations is still a big challenge for object detection. In this paper, we propose a novel Deformable Template Network (DTN), which exploits the pictorial structure to model possible variations of an object. DTN represents an object by virtue of a generated template in a deformable way. It has two key modules: the template generating module and the part matching module. The template generating module produces a template for a given object which defines the anchor positions of the$k{\times }k$parts. Based on such a template, the part matching module aims to perform part alignment around the anchor positions. In terms of each part, the matching process makes a trade-off between maximizing the detection score and minimizing the deformation cost relative to the anchor position. Moreover, DTN is a fully convolutional network which means it is competitive in terms of detection efficiency. We evaluate DTN on both the PASCAL VOC and MSCOCO datasets, achieving the state-of-the-art results, an accuracy of 82.7% for PASCAL VOC and of 44.9% for MSCOCO.

Cross-modal hashing has received increasing research attentions due to its less storage and efficient retrieval. However, most existing cross-modal hashing methods focus only on exploring multi-modal information, while underestimate the significance of local and Euclidean structure information on the hashing learning procedure. In this paper, we propose a supervised discrete-based cross-modal hashing method, named Scalable Discriminative Discrete Hashing (SDDH), for cross-modal retrieval, where 1) the discrete hash codes are directly obtained by multi-modal features and semantic labels so that the quantization errors are dramatically reduced, and 2) the discrete hash codes simultaneously preserve the heterogeneous similarity and manifold information in the original space by employing matrix factoring with orthogonal and balanced constraints. Moreover, an efficient optimization is introduced to tackle the discrete solution, which makes the SDDH scalable to large-scale cross-modal retrieval. Empirical results on three widely-used benchmark databases clearly demonstrate the effectiveness and efficiency of the proposed method in comparison with state-of-the-arts.

Although deep convolutional neural networks have achieved great success in object detection, they depend heavily on considerable training data and do not have a specific mechanism to handle related challenging problems, such as object deformation. In this paper, we design a deformable subnetwork (DSN) to introduce the deformable part-based model (DPM) in the deep object detection framework. It is effective for handling object deformation and is composed of two significant parts: the deformation coefficient part and the deformation pooling part. The deformation coefficient part is responsible for generating the deformation coefficients for each position of the input. The deformation pooling part calculates the final score for each position which takes into account its displacement penalty relative to the root position. DSN is convenient for being embedded into the most prevalent object detection frameworks such as faster-RCNN or RFCN. More importantly, it does not impair the integrity of the original framework and only causes little time consumption. We show the effectiveness of DSN via experiments on the PASCAL VOC and COCO datasets, achieving state-of-the-art results, 82.7% for PASCAL VOC and 32.1% for COCO.