Reconstructing Dynamic 3D Gaussian Splatting (3DGS) from low-framerate RGB videos is challenging. This is because large inter-frame motions will increase the uncertainty of the solution space. For example, one pixel in the first frame might have more choices to reach the corresponding pixel in the second frame. Event cameras can asynchronously capture rapid visual changes and are robust to motion blur, but they do not provide color information. Intuitively, the event stream can provide deterministic constraints for the inter-frame large motion by the event trajectories. Hence, combining low-temporal resolution images with high-framerate event streams can address this challenge. However, it is challenging to jointly optimize Dynamic 3DGS using both RGB and event modalities due to the significant discrepancy between these two data modalities. This paper introduces a novel framework that jointly optimizes dynamic 3DGS from the two modalities. The key idea is to adopt event motion priors to guide the optimization of the deformation fields. First, we extract the motion priors encoded in event streams by using the proposed LoCM unsupervised fine-tuning framework to adapt an event flow estimator to a certain unseen scene. Then, we present the geometry-aware data association method to build the event-Gaussian motion correspondence, which is the primary foundation of the pipeline, accompanied by two useful strategies, namely motion decomposition and inter-frame pseudo-label. Extensive experiments show that our method outperforms existing image and event-based approaches across synthetic and real scenes and prove that our method can effectively optimize dynamic 3DGS with the help of event data.

Continual Structured Knowledge Reasoning (CSKR) focuses on training models to handle sequential tasks, where each task involves translating natural language questions into structured queries grounded in structured knowledge. Existing general continual learning approaches face significant challenges when applied to this task, including poor generalization to heterogeneous structured knowledge and inefficient reasoning due to parameter growth as tasks increase. To address these limitations, we propose a novel CSKR framework, \textsc{K-DeCore}, which operates with a fixed number of tunable parameters. Unlike prior methods, \textsc{K-DeCore} introduces a knowledge decoupling mechanism that disentangles the reasoning process into task-specific and task-agnostic stages, effectively bridging the gaps across diverse tasks. Building on this foundation, \textsc{K-DeCore} integrates a dual-perspective memory consolidation mechanism for distinct stages and introduces a structure-guided pseudo-data synthesis strategy to further enhance the model's generalization capabilities. Extensive experiments on four benchmark datasets demonstrate the superiority of \textsc{K-DeCore} over existing continual learning methods across multiple metrics, leveraging various backbone large language models.

Event cameras offer promising advantages such as high dynamic range and low latency, making them well-suited for challenging lighting conditions and fast-moving scenarios. However, reconstructing 3D scenes from raw event streams is difficult because event data is sparse and does not carry absolute color information. To release its potential in 3D reconstruction, we propose the first event-based generalizable 3D reconstruction framework, which reconstructs scenes as 3D Gaussians from only event input in a feedforward manner and can generalize to unseen cases without any retraining. This framework includes a depth estimation module, an intensity reconstruction module, and a Gaussian regression module. These submodules connect in a cascading manner, and we collaboratively train them with a designed joint loss to make them mutually promote. To facilitate related studies, we build a novel event-based 3D dataset with various material objects and calibrated labels of greyscale images, depth maps, camera poses, and silhouettes. Experiments show models that have jointly trained significantly outperform those trained individually. Our approach performs better than all baselines in reconstruction quality, and depth/intensity predictions with satisfactory rendering speed.

3D neural implicit representations play a significant component in many robotic applications. However, reconstructing neural radiance fields (NeRF) from realistic event data remains a challenge due to the sparsities and the lack of information when only event streams are available. In this paper, we utilize motion, geometry, and density priors behind event data to impose strong physical constraints to augment NeRF training. The proposed novel pipeline can directly benefit from those priors to reconstruct 3D scenes without additional inputs. Moreover, we present a novel density-guided patch-based sampling strategy for robust and efficient learning, which not only accelerates training procedures but also conduces to expressions of local geometries. More importantly, we establish the first large dataset for event-based 3D reconstruction, which contains 101 objects with various materials and geometries, along with the groundtruth of images and depth maps for all camera viewpoints, which significantly facilitates other research in the related fields. The code and dataset will be publicly available at https://github.com/Mercerai/PAEv3d.

Learning-based simulators show great potential for simulating particle dynamics when 3D groundtruth is available, but per-particle correspondences are not always accessible. The development of neural rendering presents a new solution to this field to learn 3D dynamics from 2D images by inverse rendering. However, existing approaches still suffer from ill-posed natures resulting from the 2D to 3D uncertainty, for example, specific 2D images can correspond with various 3D particle distributions. To mitigate such uncertainty, we consider a conventional, mechanically interpretable framework as the physical priors and extend it to a learning-based version. In brief, we incorporate the learnable graph kernels into the classic Discrete Element Analysis (DEA) framework to implement a novel mechanics-informed network architecture. In this case, the graph networks are only used for approximating some specific mechanical operators in the DEA framework rather than the whole dynamics mapping. By integrating the strong physics priors, our methods can effectively learn the dynamics of various materials from the partial 2D observations in a unified manner. Experiments show that our approach outperforms other learned simulators by a large margin in this context and is robust to different renderers, fewer training samples, and fewer camera views.

BACKGROUND: Network alignment is an efficient computational framework in the prediction of protein function and phylogenetic relationships in systems biology. However, most of existing alignment methods focus on aligning PPIs based on static network model, which are actually dynamic in real-world systems. The dynamic characteristic of PPI networks is essential for understanding the evolution and regulation mechanism at the molecular level and there is still much room to improve the alignment quality in dynamic networks. RESULTS: In this paper, we proposed a novel alignment algorithm, Twadn, to align dynamic PPI networks based on a strategy of time warping. We compare Twadn with the existing dynamic network alignment algorithm DynaMAGNA++ and DynaWAVE and use area under the receiver operating characteristic curve and area under the precision-recall curve as evaluation indicators. The experimental results show that Twadn is superior to DynaMAGNA++ and DynaWAVE. In addition, we use protein interaction network of Drosophila to compare Twadn and the static network alignment algorithm NetCoffee2 and experimental results show that Twadn is able to capture timing information compared to NetCoffee2. CONCLUSIONS: Twadn is a versatile and efficient alignment tool that can be applied to dynamic network. Hopefully, its application can benefit the research community in the fields of molecular function and evolution.

BACKGROUND: Transcription factors (TFs) play important roles in the regulation of gene expression. They can activate or block transcription of downstream genes in a manner of binding to specific genomic sequences. Therefore, motif discovery of these binding preference patterns is of central significance in the understanding of molecular regulation mechanism. Many algorithms have been proposed for the identification of transcription factor binding sites. However, it remains a challengeable problem. RESULTS: Here, we proposed a novel motif discovery algorithm based on support vector machine (MD-SVM) to learn a discriminative model for TF binding sites. MD-SVM firstly obtains position weight matrix (PWM) from a set of training datasets. Then it translates the MD problem into a computational framework of multiple instance learning (MIL). It was applied to several real biological datasets. Results show that our algorithm outperforms MI-SVM in terms of both accuracy and specificity. CONCLUSIONS: In this paper, we modeled the TF motif discovery problem as a MIL optimization problem. The SVM algorithm was adapted to discriminate positive and negative bags of instances. Compared to other svm-based algorithms, MD-SVM show its superiority over its competitors in term of ROC AUC. Hopefully, it could be of benefit to the research community in the understanding of molecular functions of DNA functional elements and transcription factors.

BACKGROUND: The discovery of functionally conserved proteins is a tough and important task in system biology. Global network alignment provides a systematic framework to search for these proteins from multiple protein-protein interaction (PPI) networks. Although there exist many web servers for network alignment, no one allows to perform global multiple network alignment tasks on users' test datasets. RESULTS: Here, we developed a web server WebNetcoffee based on the algorithm of NetCoffee to search for a global network alignment from multiple networks. To build a series of online test datasets, we manually collected 218,339 proteins, 4,009,541 interactions and many other associated protein annotations from several public databases. All these datasets and alignment results are available for download, which can support users to perform algorithm comparison and downstream analyses. CONCLUSION: WebNetCoffee provides a versatile, interactive and user-friendly interface for easily running alignment tasks on both online datasets and users' test datasets, managing submitted jobs and visualizing the alignment results through a web browser. Additionally, our web server also facilitates graphical visualization of induced subnetworks for a given protein and its neighborhood. To the best of our knowledge, it is the first web server that facilitates the performing of global alignment for multiple PPI networks. AVAILABILITY: http://www.nwpu-bioinformatics.com/WebNetCoffee.