How a single fertilized cell gives rise to a complex array of specialized cell types in development is a central question in biology. The cells grow, divide, and acquire differentiated characteristics through poorly understood molecular processes. A key approach to studying developmental processes is to infer the tree graph of cell lineage division and differentiation histories, providing an analytical framework for dissecting individual cells' molecular decisions during replication and differentiation. Although genetically engineered lineage-tracing methods have advanced the field, they are either infeasible or ethically constrained in many organisms. In contrast, modern single-cell technologies can measure high-content molecular profiles (e.g., transcriptomes) in a wide range of biological systems. Here, we introduce CellTreeQM, a novel deep learning method based on transformer architectures that learns an embedding space with geometric properties optimized for tree-graph inference. By formulating lineage reconstruction as a tree-metric learning problem, we have systematically explored supervised, weakly supervised, and unsupervised training settings and present a Lineage Reconstruction Benchmark to facilitate comprehensive evaluation of our learning method. We benchmarked the method on (1) synthetic data modeled via Brownian motion with independent noise and spurious signals and (2) lineage-resolved single-cell RNA sequencing datasets. Experimental results show that CellTreeQM recovers lineage structures with minimal supervision and limited data, offering a scalable framework for uncovering cell lineage relationships in challenging animal models. To our knowledge, this is the first method to cast cell lineage inference explicitly as a metric learning task, paving the way for future computational models aimed at uncovering the molecular dynamics of cell lineage.

Long-term test-time adaptation (TTA) is a challenging task due to error accumulation. Recent approaches tackle this issue by actively labeling a small proportion of samples in each batch, yet the annotation burden quickly grows as the batch number increases. In this paper, we investigate how to achieve effortless active labeling so that a maximum of one sample is selected for annotation in each batch. First, we annotate the most valuable sample in each batch based on the single-step optimization perspective in the TTA context. In this scenario, the samples that border between the source- and target-domain data distributions are considered the most feasible for the model to learn in one iteration. Then, we introduce an efficient strategy to identify these samples using feature perturbation. Second, we discover that the gradient magnitudes produced by the annotated and unannotated samples have significant variations. Therefore, we propose balancing their impact on model optimization using two dynamic weights. Extensive experiments on the popular ImageNet-C, -R, -K, -A and PACS databases demonstrate that our approach consistently outperforms state-of-the-art methods with significantly lower annotation costs.

As deep neural networks(DNN) become increasingly prevalent, particularly in high-stakes areas such as autonomous driving and healthcare, the ability to detect incorrect predictions of models and intervene accordingly becomes crucial for safety. In this work, we investigate the detection of misclassified inputs for image classification models from the lens of adversarial perturbation: we propose to use robust radius (a.k.a. input-space margin) as a confidence metric and design two efficient estimation algorithms, RR-BS and RR-Fast, for misclassification detection. Furthermore, we design a training method called Radius Aware Training (RAT) to boost models' ability to identify mistakes. Extensive experiments show our method could achieve up to 29.3% reduction on AURC and 21.62% reduction in FPR@95TPR, compared with previous methods.

Distributed denial-of-service (DDoS) attacks remain a critical threat to Internet services, causing costly disruptions. While machine learning (ML) has shown promise in DDoS detection, current solutions struggle with multi-domain environments where attacks must be detected across heterogeneous networks and organizational boundaries. This limitation severely impacts the practical deployment of ML-based defenses in real-world settings. This paper introduces Anomaly-Flow, a novel framework that addresses this critical gap by combining Federated Learning (FL) with Generative Adversarial Networks (GANs) for privacy-preserving, multi-domain DDoS detection. Our proposal enables collaborative learning across diverse network domains while preserving data privacy through synthetic flow generation. Through extensive evaluation across three distinct network datasets, Anomaly-Flow achieves an average F1-score of $0.747$, outperforming baseline models. Importantly, our framework enables organizations to share attack detection capabilities without exposing sensitive network data, making it particularly valuable for critical infrastructure and privacy-sensitive sectors. Beyond immediate technical contributions, this work provides insights into the challenges and opportunities in multi-domain DDoS detection, establishing a foundation for future research in collaborative network defense systems. Our findings have important implications for academic research and industry practitioners working to deploy practical ML-based security solutions.

EEG-based eye tracking (ET) is emerging as a promising application of brain-computer interfaces (BCIs) (Dietrich et al., 2017; Fuhl et al., 2023; Kastrati et al., 2021; Sun et al., 2023). While EEG is typically used to record the electrical activity of the brain, it also captures eye movement artifacts due to the inherent electrical charge of the eyes. Although these signals are usually considered noise in other BCI applications and are often removed (Croft and Barry, 2000), they can be effectively used to track eye movements. These signals are also easier to decode than brain activity, as they are not complicated by the complexity and noise associated with brain signal interpretation. In addition, achieving reliable and accurate eye tracking using EEG technology could significantly enhance existing consumer BCIs, opening up a wide range of new applications. Apart from the potential for BCI applications, EEG-based eye tracking is an interesting alternative to eye tracking in its own right, offering several advantages over camera-based eye tracking, which is the predominant method used for eye tracking today.

Time series analysis (TSA) is a longstanding research topic in the data mining community and has wide real-world significance. Compared to "richer" modalities such as language and vision, which have recently experienced explosive development and are densely connected, the time-series modality remains relatively underexplored and isolated. We notice that many recent TSA works have formed a new research field, i.e., Multiple Modalities for TSA (MM4TSA). In general, these MM4TSA works follow a common motivation: how TSA can benefit from multiple modalities. This survey is the first to offer a comprehensive review and a detailed outlook for this emerging field. Specifically, we systematically discuss three benefits: (1) reusing foundation models of other modalities for efficient TSA, (2) multimodal extension for enhanced TSA, and (3) cross-modality interaction for advanced TSA. We further group the works by the introduced modality type, including text, images, audio, tables, and others, within each perspective. Finally, we identify the gaps with future opportunities, including the reused modalities selections, heterogeneous modality combinations, and unseen tasks generalizations, corresponding to the three benefits. We release an up-to-date GitHub repository that includes key papers and resources.

Accurate perception of dynamic traffic scenes is crucial for high-level autonomous driving systems, requiring robust object motion estimation and instance segmentation. However, traditional methods often treat them as separate tasks, leading to suboptimal performance, spatio-temporal inconsistencies, and inefficiency in complex scenarios due to the absence of information sharing. This paper proposes a multi-task SemanticFlow framework to simultaneously predict scene flow and instance segmentation of full-resolution point clouds. The novelty of this work is threefold: 1) developing a coarse-to-fine prediction based multi-task scheme, where an initial coarse segmentation of static backgrounds and dynamic objects is used to provide contextual information for refining motion and semantic information through a shared feature processing module; 2) developing a set of loss functions to enhance the performance of scene flow estimation and instance segmentation, while can help ensure spatial and temporal consistency of both static and dynamic objects within traffic scenes; 3) developing a self-supervised learning scheme, which utilizes coarse segmentation to detect rigid objects and compute their transformation matrices between sequential frames, enabling the generation of self-supervised labels. The proposed framework is validated on the Argoverse and Waymo datasets, demonstrating superior performance in instance segmentation accuracy, scene flow estimation, and computational efficiency, establishing a new benchmark for self-supervised methods in dynamic scene understanding.

Deep models in industrial applications rely on thousands of features for accurate predictions, such as deep recommendation systems. While new features are introduced to capture evolving user behavior, outdated or redundant features often remain, significantly increasing storage and computational costs. To address this issue, feature selection methods are widely adopted to identify and remove less important features. However, existing approaches face two major challenges: (1) they often require complex hyperparameter (Hp) tuning, making them difficult to employ in practice, and (2) they fail to produce well-separated feature importance scores, which complicates straightforward feature removal. Moreover, the impact of removing unimportant features can only be evaluated through retraining the model, a time-consuming and resource-intensive process that severely hinders efficient feature selection. To solve these challenges, we propose a novel feature selection approach, ShuffleGate. In particular, it shuffles all feature values across instances simultaneously and uses a gating mechanism that allows the model to dynamically learn the weights for combining the original and shuffled inputs. Notably, it can generate well-separated feature importance scores and estimate the performance without retraining the model, while introducing only a single Hp. Experiments on four public datasets show that our approach outperforms state-of-the-art methods in feature selection for model retraining. Moreover, it has been successfully integrated into the daily iteration of Bilibili's search models across various scenarios, where it significantly reduces feature set size (up to 60%+) and computational resource usage (up to 20%+), while maintaining comparable performance.

EnQode: Fast Amplitude Embedding for Quantum Machine Learning Using Classical Data Jason Han Rice University Houston, USA Nicholas S. DiBrita Rice University Houston, USA Y ounghyun Cho Santa Clara University Santa Clara, USA Hengrui Luo Rice University Houston, USA Tirthak Patel Rice University Houston, USA Abstract --Amplitude embedding (AE) is essential in quantum machine learning (QML) for encoding classical data onto quantum circuits. However, conventional AE methods suffer from deep, variable-length circuits that introduce high output error due to extensive gate usage and variable error rates across samples, resulting in noise-driven inconsistencies that degrade model accuracy. We introduce EnQode, a fast AE technique based on symbolic representation that addresses these limitations by clustering dataset samples and solving for cluster mean states through a low-depth, machine-specific ansatz. Optimized to reduce physical gates and SW AP operations, EnQode ensures all samples face consistent, low noise levels by standardizing circuit depth and composition. With over 90% fidelity in data mapping, EnQode enables robust, high-performance QML on noisy intermediate-scale quantum (NISQ) devices. Our open-source solution provides a scalable and efficient alternative for integrating classical data with quantum models. I NTRODUCTION As quantum computing advances toward broader applicability, one of its key challenges is interfacing classical data with quantum algorithms [40], [34]. Quantum machine learning (QML) has shown potential in fields ranging from material discovery to the physical sciences, with amplitude embedding (AE) being the critical mechanism for encoding classical data onto quantum states [11], [12], [25].

Cardiopulmonary exercise testing (CPET) provides a comprehensive assessment of functional capacity by measuring key physiological variables including oxygen consumption ($VO_2$), carbon dioxide production ($VCO_2$), and pulmonary ventilation ($VE$) during exercise. Previous research has established that parameters such as peak $VO_2$ and $VE/VCO_2$ ratio serve as robust predictors of mortality risk in chronic heart failure patients. In this study, we leverage CPET variables as surrogate mortality endpoints for patients with Congenital Heart Disease (CHD). To our knowledge, this represents the first successful implementation of an advanced machine learning approach that predicts CPET outcomes by integrating electrocardiograms (ECGs) with information derived from clinical letters. Our methodology began with extracting unstructured patient information-including intervention history, diagnoses, and medication regimens-from clinical letters using natural language processing techniques, organizing this data into a structured database. We then digitized ECGs to obtain quantifiable waveforms and established comprehensive data linkages. The core innovation of our approach lies in exploiting the Riemannian geometric properties of covariance matrices derived from both 12-lead ECGs and clinical text data to develop robust regression and classification models. Through extensive ablation studies, we demonstrated that the integration of ECG signals with clinical documentation, enhanced by covariance augmentation techniques in Riemannian space, consistently produced superior predictive performance compared to conventional approaches.