Represenation_Learning
-
ReSeg: Retraining-free segmentation of abdominal organs via generalizable semantic representation learning
2026-10-21 02:31:19Derong Yu, Guoyan ZhengAbstract
Abdominal organ segmentation is essential in modern medical applications. While existing deep learning approaches demonstrate promising performance, their heavy reliance on large-scale image data raises concerns over generalization capability and privacy risks. This motivates the development of generalizable segmentation training paradigms based on domain-randomized image synthesis, facilitating generalization across unseen real image domains. However, existing paradigms either suffer from limited segmentation performance when applied to abdominal organs, or require dataset-specific finetuning. To address these limitations, we propose ReSeg, a novel two-stage retraining-free framework for domain-agnostic zero-shot abdominal organ segmentation. At the first stage, our organ-agnostic synthetic data-driven pretraining approach exploits semantically and visually diverse synthetic images generated by a dedicated data engine to optimize a Generalizable Semantic Representation Network (GSRNet). The network is thereby capable of learning semantic features robust against variations in anatomical structure, imaging contrast, resolution and spatial context, which provide universal representation capabilities that serve as a foundation for segmentation learning. Subsequently, in the second stage, we continue to train an Organ-specific Encoder-decoder Segmentation Network (OESNet), whose encoder is initialized with the pretrained weights. This training process is facilitated by another dedicated data engine, which generates diversified visual images while strictly retaining the inherent spatial layout of abdominal organs. Comprehensive evaluation on seven abdominal organ segmentation datasets across three different modalities including CT, MRI, and PET demonstrates that ReSeg consistently outperforms existing state-of-the-art (SOTA) methods while eliminating the need for real training images.
Abstract (translated)
URL
https://arxiv.org/abs/2610.29090
PDF
-
Depth-guided Geometric Adaptation for Few-shot Image Classification
2026-10-20 19:29:42Zhiqi Miao, Estefan\'ia Talavera, Weichuan Zhang, Jiapan GuoAbstract
Few-shot image classification (FSIC) frequently suffers from visual ambiguity, where background clutter and RGB appearance similarities hinder discriminative feature matching in data-scarce settings. To mitigate this, we propose DAFIC, a geometry-guided framework that incorporates monocular depth into representation learning, episodic adaptation, and dense support-query matching. DAFIC first learns geometry-aware token representations through RGB-D self-supervised pre-training. Subsequently, the Depth-guided Geometric Adaptation (DGA) module uses depth-derived geometry to refine patch representations with geometry-enriched class context while suppressing background interference. Spatial Bidirectional Patch Matching (SBiM) then performs bidirectional dense matching on the refined features, reducing sensitivity to spurious correspondences and background clutter. Extensive experiments on four benchmarks show that DAFIC achieves strong performance against existing methods, with ablation and robustness analyses supporting the effectiveness of coupling geometry-conditioned episodic adaptation with bidirectional matching for few-shot visual recognition.
Abstract (translated)
URL
https://arxiv.org/abs/2610.28856
PDF
-
Spatially Informed and Direction Sensitive Representation Learning for Spatial Transcriptomics
2026-10-20 17:32:57Azim Dehghani Amirabad, Ali Khodabandeh Yalabadi, Artem Moskalev, Yun-Ching Chen, Mehdi Pirooznia, Scott Oloff, Rui LiaoAbstract
Cellular states are shaped by both intrinsic gene expression programs and the spatial microenvironment in which cells reside. Spatial transcriptomics makes this context measurable, but effective representation learning requires capturing both spatially informative molecular signals and intercellular organization. Existing approaches address these challenges only partially: conventional gene selection can overlook spatially structured signals, while methods for encoding cell-cell relationships often either reduce a cell's microenvironment to proximity alone, discarding direction, or rely on absolute coordinates tied to an arbitrary tissue frame. Consequently, cells with similar neighbor distances but distinct spatial organization may receive overly similar representations, despite experiencing different biological contexts that shape their cellular states. We introduce Tessera, a spatial representation learning framework that addresses both molecular selection and cellular context. Tessera combines spatially informed gene selection with a geometric inductive bias that contextualizes each cell within its local tissue environment. By modeling relative cell-cell relationships, Tessera is translation-invariant while preserving direction, allowing neighboring cells to contribute differently according to their spatial context and cellular state. Across held-out tissues and technologies, Tessera outperforms existing spatial foundation models in representation quality and generalizes zero-shot to contexts up to $16\times$ larger than those seen during training.
Abstract (translated)
URL
https://arxiv.org/abs/2610.28579
PDF
-
Touch-JEPA: Tactile Representation Learning from Hand-Object Video with Limited Tactile Supervision
2026-10-20 16:56:11Minseong Kweon, Qiao Feng, Yiming Huang, Lingjie LiuAbstract
Understanding contact and tactile magnitude in hand-object interaction is a key step toward physically intelligent systems, yet learning such representations is limited by the cost and restricted coverage of tactile measurements. We present Touch-JEPA, a framework for learning tactile representations from hand-object videos with limited tactile supervision. We first introduce a self-supervised pretraining objective that learns from video alone without tactile supervision. Using video-derived hand geometry, Touch-JEPA predicts masked visual features at corresponding hand-surface locations from spatial and temporal context, encouraging the representation to capture latent contact dynamics. We then extend this formulation to joint representation learning, where masked prediction is applied to all videos while tactile supervision is available only for a labeled subset, grounding the shared representation in measured contact and magnitude. With self-supervised pretraining alone, simple supervised readouts on frozen Touch-JEPA features outperform supervised baselines in contact discrimination and tactile magnitude estimation across three human-hand benchmarks, and transfer to robotic hands without robot tactile training data. Joint learning with limited tactile supervision further improves contact and magnitude estimation on the human-hand benchmarks. Together, these results show that hand-object video can provide scalable self-supervision for tactile representation learning, while limited tactile measurements provide complementary physical grounding.
Abstract (translated)
URL
https://arxiv.org/abs/2610.28519
PDF
-
Exploring Temporal Context-Aware Physical Grounding in Latent World Models
2026-10-20 16:30:27Yilei Man, Yang Chen, Jingcai GuoAbstract
Learning latent dynamics is fundamental to building action-conditioned world models for planning. Among existing families, Joint Embedding Predictive Architectures (JEPAs) offer a natural framework by modeling transitions directly in latent space rather than at the pixel level. However, two issues remain in JEPA-based world models: (i) physical grounding lacks explicit aggregation of temporal context and (ii) action planning always overly relies on generic sampling distributions. To this end, we propose $\mathcal{G}$-JEPA, which incorporates temporal context into physical grounding for latent world models and couples the learned models with prior-guided action planning. Specifically, during learning, we incorporate a shared causal temporal module that aggregates temporal context within observation and prediction sequences under physical state supervision, grounding both in task-relevant physical states. When planning, we further introduce action inference through stepwise conditioning of a generative action distribution on the current and goal latent representations together with their evolving discrepancy, yielding anchored proposals that guide model-based online refinement. Together, physical state supervision guides temporal representation learning, while the action prior guides search through the learned world model. Experiments demonstrate improved planning performance on manipulation tasks, including tasks with increasing temporal separation between initial and goal observations. Code is publicly available at this https URL.
Abstract (translated)
URL
https://arxiv.org/abs/2610.28483
PDF
-
Causal Discovery for Linear Models with Latent Confounding via Multi-domain Identifiable Representation Learning
2026-10-20 12:43:23Danru Xu, Aapo Hyv\"arinen, Sara MagliacaneAbstract
Causal discovery with latent confounding is particularly challenging, but a common setting in real-world data. In this work, we focus on linear causal models with latent confounding, represented by acyclic directed mixed graphs (ADMGs). Existing methods that fully identify ADMGs typically assume non-Gaussianity or graphical constraints, such as bow-freeness. In contrast, we propose Linear ADMG Learning (LinADMG), a framework for learning ADMGs for linear causal models through identifiable representation learning. Rather than relying on non-Gaussianity or bow-freeness, LinADMG leverages multi-domain settings to identify the noise variables. We show that the identifiability of the noise variables is sufficient for recovering all direct causal relations, and that, under an additional latent-confounding no-cancellation condition, LinADMG can identify the whole ADMG. We implement LinADMG with four identifiable representation learning approaches from the literature and validate the methods on simulated and semisynthetic datasets.
Abstract (translated)
URL
https://arxiv.org/abs/2610.28134
PDF
-
Robust Representation Learning for Spiking Neural Networks based on Conditional Information Bottleneck
2026-10-20 12:21:31Yuli Zha, Wang Fan, Yixiao Dai, Lingjie Wang, Bang Hu, Wei Cao, Fengzhe Zhang, Fan ZhangAbstract
Spiking Neural Networks (SNNs) have shown great potential for low-power neuromorphic computing due to their event-driven processing and spatiotemporal sparsity, but they remain vulnerable to input perturbations, hardware-intrinsic noise, and adversarial attacks in real-world deployment. We attribute this vulnerability partly to input-specific hidden representations learned by standard SNNs trained with conventional cross-entropy loss, as our information-plane analysis empirically shows that substantial input-related information can still be retained after label-predictive information becomes stable. To address this issue, we propose SCIB, a simple yet effective robust learning objective for SNNs based on the Conditional Information Bottleneck. Different from conventional variational IB methods, SCIB replaces the mutual information compression term $I(X;S)$ with the conditional mutual information $I(X;S|Y)$ and derives a tractable variational upper bound. Moreover, it introduces a learnable class-conditional prior instead of a label-agnostic isotropic Gaussian prior, improving the expressiveness of variational compression and encouraging class-structured representations when combined with the supervised classification objective. Systematic experiments on Fashion-MNIST, CIFAR-10, and CIFAR-100 under external environmental noise, neuromorphic hardware noise, and adversarial attacks show that SCIB improves robustness over standard SNNs and IB-based baselines under most evaluated noise conditions, improves adversarial accuracy under the evaluated attacks without using adversarial training, and reduces the SynOps-based single-sample inference energy consumption by 24.9% relative to an unconstrained SNN baseline.
Abstract (translated)
URL
https://arxiv.org/abs/2610.28110
PDF
-
Learning Tactile-Aware Hand Representations from Human Hand-Object Interaction Data
2026-10-20 10:31:45Yeonguk Yu, Jaehong Kim, Byungok HanAbstract
Tactile representation learning for dexterous manipulation often requires substantial robot-side data collection, limiting its scalability across different hands and sensors. We explore whether large-scale human hand-object interaction (HOI) data can provide a useful prior for robotic tactile learning. To this end, we propose HuTact, a framework that pretrains tactile-aware hand representations from human HOI data without requiring real tactile signals during pretraining. HuTact transfers the interaction structure learned from human hand motions to robotic tactile observations and can be further adapted with a small amount of unlabeled robot interaction data. We evaluate HuTact on tactile perception and manipulation tasks, including grasp prediction, slip detection, object classification, and tactile-conditioned policy learning. Across these tasks, human HOI pretraining improves data efficiency and provides a strong initialization for downstream learning. Notably, with HOI pretraining followed by midtraining on unlabeled robot play data, HuTact achieves 88.26% Macro-F1 on grasp prediction using only 25\% of the labeled downstream data, comparable to training from scratch on the full labeled dataset (88.23%). These results suggest that human interaction data can serve as a scalable complementary source for robotic tactile representation learning.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27995
PDF
-
HypTI: Hyperbolic Geometry-Aware Multimodal Feature Fusion Framework for Dementia Detection Based on Tabular-Image Data
2026-10-20 09:49:08Jianfei Xu, Huizhi Liang, Judith Harrison, John-Paul Taylor, Jaume Bacardit, Varun OjhaAbstract
AI-assisted dementia detection usually requires multimodal fusion of diverse data, such as clinical tabular assessments and neuroimaging data. However, most existing approaches perform feature fusion in Euclidean space. This overlooks the geometric structure of representation, including hierarchical organization in clinical assessments and multi-scale anatomical patterns in neuroimaging data. Recent studies have proved hyperbolic space provides a natural geometry for modelling hierarchical and multi-scale structures due to its exponentially expanding space. Motivated by these, we propose HypTI, a hyperbolic geometry-aware multimodal fusion framework for dementia detection based on clinical tabular assessments and MRI scans. HypTI extends hyperbolic representation learning to an underexplored tabular-MRI setting, jointly modelling clinical tabular, MRI scans, and cross-modal interactions in hyperbolic space. Specifically, clinical tabular variables are represented through learnable Lorentz prototypes to capture hierarchical relationships among assessments, while MRI scans are encoded using ROI-guided multi-scale representation learning to capture anatomical patterns across brain regions and spatial scales in Lorentz space. The multimodal representations are integrated through an adaptive fusion module generates subject-specific scale and shift coefficients to dynamically modulate and integrate the multimodal embeddings, enabling effective patient-level tabular-image representation learning for dementia detection. Experiments on OASIS-3 dataset show that the proposed framework achieves strong performance compared with representative approaches.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27941
PDF
-
EndoWorld-JEPA: Motion-Guided Global-Local Latent World Modeling for Endoscopic Video Representation Learning
2026-10-20 09:11:49Jie Wang, Shilong Yang, Tao Zhou, Juan Yu, Rong Qu, Jianfeng Ren, Zhicheng Zhang, Linlin ShenAbstract
Endoscopic video contains state transitions induced by camera displacement, deformable tissue, and instrument interaction, yet existing pre-training methods treat dynamics implicitly. Inspired by action-conditioned joint-embedding predictive world models and by the observation that endoscopic optical flow contains both shared image-plane displacement and localized residual motion, we reformulate passive endoscopic video pre-training as causal motion-guided latent-state prediction. We present EndoWorld-JEPA, to our knowledge the first latent world-model pre-training framework designed for general-purpose endoscopic video representation learning. In place of recorded actions, calibrated poses, or robot kinematics, the model conditions prediction of the next latent state on motion observed up to the current state. Its Optical Motion-guided module separates dominant displacement from residual motion and converts the resulting evidence into an ordered temporal motion condition and spatial local-motion weights. Complementary global and motion-local predictors use these outputs: the temporal condition modulates both latent transitions, whereas the local weights define an auxiliary motion-local state that extends prediction from scene-level evolution to spatially selective dynamics. Patch-wise motion weighting emphasizes localized change while retaining anatomical context, and past-motion-window dropout randomly withholds the complete motion condition to reduce dependence on unreliable motion. This global--local formulation learns predictable visual--motion dynamics in representation space without reconstructing stochastic appearance artifacts. Evaluation shows that a common pre-trained checkpoint achieves strong transfer across four downstream benchmarks, supporting motion-guided global--local latent prediction as an effective pre-training paradigm for endoscopic video.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27890
PDF
-
Decoupled Representation Learning for Face Presentation Attack Detection under Smart Glass Capture
2026-10-20 07:59:40Raghavendra Ramachandra, Narayan Vetrekar, Neha Naik, Rajendra GadAbstract
Face presentation attack detection is typically studied under fixed camera or handheld acquisition, whereas smart glass capture introduces a more challenging setting with ego motion, changing viewpoint, background clutter, distance variation, and less controlled illumination. To address this challenge, we present \emph{SmaGla-FPAD}, a smart glass based face presentation attack database acquired using Ray-Ban Meta Wayfarer Smart Glasses across indoor, outdoor, and in-car settings. The database contains 297,000 sample images with both bona fide and silicone mask based attacks. We further propose \emph{DeCoupPAD-FAS++}, a decoupled representation learning framework that separates spoof related evidence from nuisance sensitive capture variation through complementary attack and style branches, pseudo-domain supervision, adversarial suppression, and prompt guided semantic alignment. Experiments on SmaGla-FPAD show that the proposed method achieves the best balance between attack rejection and bona fide acceptance in both in domain and cross scenario evaluation. Ablation results further confirm the contribution of disentanglement, pseudo-domain supervision, and prompt based regularisation under smart glass capture.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27800
PDF
-
PanoGraphGS: Unifying Panoptic Segmentation and Hierarchical 3D Scene Graphs with Gaussian Splatting
2026-10-20 06:15:59Jinghan Gao, Siyu Wang, Dongyu Feng, Yiyuan Pan, Rong XiongAbstract
3D scene graphs support language-guided navigation by organizing physical entities and their containment and spatial relations into hierarchical maps. Building such structured maps requires a scene representation that consistently distinguishes semantic regions and object instances across viewpoints. To this end, we present PanoGraphGS, a unified framework that integrates panoptic 3D Gaussian representation learning with hierarchical 3D scene graph construction. The framework learns semantic and instance features on shared Gaussian geometry. Prototype-based semantic learning and association-based instance learning produce consistent panoptic predictions across viewpoints. The learned representation supports novel-view panoptic segmentation and direct Gaussian-level panoptic decoding. A semantic-aware scene graph module further recovers a floor-room-stuff-object hierarchy with containment and spatial relations. We further release NaviGS, a real-world dataset for panoramic scene understanding. The dataset provides 3DGS, mesh, RGB, semantic, and depth data. For 3D scene graph identification, PanoGraphGS outperforms the strongest evaluated baseline in object-node accuracy by more than 50\% points on average across Replica and NaviGS. PanoGraphGS also achieves state-of-the-art performance among the evaluated methods in 2D panoptic segmentation. These results demonstrate the effectiveness of PanoGraphGS in both hierarchical 3D scene understanding and 2D panoptic segmentation. The project website is available at: this https URL.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27696
PDF
-
Learning Inter-Graph Interactions Between Heterogeneous Substructures of Chemical Systems
Abstract
Complex chemical systems containing heterogeneous substructures are common in real-world applications. Various physical phenomena of the complex chemical systems are derived from the interactions between the heterogeneous substructures. However, existing graph representation learning methods for inter-graph interactions assumed graph-level interactions between homogeneous structures, such as organic molecules and inorganic crystalline materials. We propose a data descriptor of the complex chemical systems and a graph neural network for learning inter-graph interactions between organic and inorganic compounds. We applied the proposed method to predict the physical properties of hybrid solar cell materials containing heterogeneous substructures, which have received significant attention for sustainable energy resources. By learning heterogeneous inter-graph interactions, the proposed method achieved state-of-the-art accuracy in predicting band gaps of 1,682 hybrid solar cell materials.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27614
PDF
-
Causal Spatiotemporal State Evolution for Monocular 4D Reconstruction
2026-10-20 04:00:48Qiaowei Miao, Yijing Guo, Lipei Zhang, Qifeng Cheng, Yuru Xiao, Ziqian Ni, Sheng YangAbstract
While feed-forward models excel in static 3D geometry estimation, extending them to dynamic 4D scenes requires modeling visual geometry as a causally evolving state. Current methods typically rely on unordered temporal aggregation, which lacks the directional structure of physical time. Furthermore, existing supervision often treats geometry and motion as disjoint objectives, failing to exploit their inherent physical coupling. Consequently, they lack a unified constraint to effectively supervise temporal state transitions, leading to inconsistent 4D scene representations. To address this, we propose a feed-forward framework for causal 4D visual geometry learning from monocular videos. At its core, Causal Spatiotemporal Mamba augments temporal aggregation with directional state propagation. Through complementary Temporal-Spatial and Spatial-Temporal Scans, CSM continuously propagates geometry-aware states across frames to model spatiotemporal evolution. To align this causal state evolution with observable dynamics, we introduce Unified Motion Supervision. Rather than treating motion as an independent objective, UMS leverages geometry-aware predictions from the camera and depth heads to construct a unified forward motion field that is consistent with the underlying 3D structure. This geometry-grounded supervision explicitly constrains inter-frame state transitions, enabling stable states propagation across frames. Extensive evaluations on dynamic benchmarks demonstrate state-of-the-art performance across video depth, camera pose, and optical flow estimation. These results validate that the synergy between the directional state propagation of Causal Spatiotemporal Mamba and Unified Motion Supervision effectively captures continuous scene evolution, significantly reducing temporal drift and reinforcing spatial-temporal consistency in 4D representation learning.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27594
PDF
-
MiCLA: Mixture-to-Constituent Latent Alignment for Polyphonic Audio Representation Learning
2026-10-20 02:10:10Kohei Yamamoto, Kosuke OkusaAbstract
Real-world audio typically contains concurrent sound events, yet standard self-supervised methods treat each clip as an isolated training unit without explicitly modeling mixture--constituent relationships. We propose Mixture-to-Constituent Latent Alignment (MiCLA), a two-stage self-supervised pre-training framework that uses synthetic log-mel mixing to align mixture representations with their constituent clips. Stage 1 structures single-clip representations via masked self-distillation and contrastive regularization. Stage 2 introduces bidirectional alignment: for a synthetic mixture, MiCLA suppresses the component aligned with one constituent and aligns the residual with the other, using projective residualization on patch tokens and sample-adaptive soft residualization on the global class token. In downstream evaluations, MiCLA achieves 43.2% mean average precision (mAP) on AS-20K and 50.3% mAP on AS-2M under fine-tuning, and achieves the highest mAP among evaluated models on both AudioSet settings under frozen Convex Gated Probing (CGP). Furthermore, a Joint Semantic Retrieval diagnostic shows that MiCLA improves simultaneous retrieval of both constituent classes over target-averaging baselines. These results indicate that directional mixture-to-constituent alignment provides an effective pre-training signal for polyphonic audio representation learning.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27491
PDF
-
Representing short-term movement to reveal animal identity and learning progress
2026-10-19 18:35:06Ping Zhang, Quang-Huy Nguyen, Yingtie Lei, Sameera Shridhar, Zachary Leveroni, Ellie Quattrocchi, Jai Y Yu, Wei-Lun ChaoAbstract
How learning progresses over time and varies across individuals is a longstanding question in cognitive and behavioral science. However, a major challenge is identifying observable behavioral measures that faithfully capture learning progression. Existing approaches commonly rely on predefined behavioral features or task-level performance, while fine-scale posture and movement in freely behaving animals remain less explored. In this paper, we ask: can short-term movement trajectories reveal learning progress and individual identity? We introduce a self-supervised representation learning framework built on a simple hypothesis: behavioral characteristics associated with identity and learning remain relatively stable over nearby time intervals. Using temporal proximity as supervision, our framework learns compact representations directly from movement trajectories without manually defining behavioral states or kinematic features. Using behavior data from freely behaving rats, we show that the learned representations not only improve prediction of identity and learning-related readouts over existing methods, but also provide a tool for investigating broader scientific questions about when and how these signals appear in behavior. Specifically, trajectories as short as one second contain informative learning and identity signals. Egocentric pose dynamics are more predictive of identity, whereas allocentric motion is more predictive of learning-related variation, and both signals are strongest at decision junctions in the alternation cohort. We further use a representation-conditioned diffusion model to inspect movement patterns associated with identity and learning progress. Our findings establish short-term movement as an informative behavioral "fingerprint" for studying learning and individual differences. Our code is available at this https URL.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27140
PDF
-
HierDTA: Hierarchical Structure-Aware Representation Learning for Drug--Target Affinity Prediction
2026-10-19 09:17:26Huangchao Xu, Baohua Zhang, Qian Liu, Zhong Jin, Yi DuAbstract
Drug--target affinity (DTA) prediction plays an important role in computer-aided drug discovery, where reliable computational models can help prioritize compound--protein pairs before experimental validation. A key challenge in DTA prediction is to effectively mine multi-level molecular information from drug structures while accurately modeling the binding-site environment of target proteins. To address these issues, we introduce HierDTA, a hierarchical structure-aware framework for DTA prediction. \textcolor{black}{HierDTA represents each drug as an atom--motif heterogeneous graph and introduces an augmentation module that propagates functional-motif semantics to the corresponding atoms. For proteins, kinase-domain structures are converted into residue interaction graphs. The resulting atom and residue representations are integrated using cross-attention to capture pair-specific relationships, while molecule fingerprints and pretrained ESM-2 embeddings provide complementary global information. Compared with state-of-the-art methods, HierDTA achieves superior performance on the Davis dataset across all metrics and attains the highest \(r_m^2\) of 0.791 on KIBA. It also exhibits strong generalization under cold-start settings, particularly on KIBA, where MSE is reduced by 21.7\% in the unseen-protein scenario. Ablation study and interpretability analysis supported the contributions of the hierarchical augmentation and interaction components.} Case studies further showed that HierDTA provided early enrichment of candidate bioactive compounds. These results indicate that HierDTA is an effective framework for affinity prediction and target-specific virtual screening.
Abstract (translated)
URL
https://arxiv.org/abs/2610.27001
PDF
-
REST: Reliability-Guided Spatial Transcriptomics Supervision for Gene Expression Prediction from Histopathological HE-Stained Images
2026-10-19 06:07:51Lanfeng Zhong, Xiangyu Sun, Guixuan Xu, Rongzhao Zhang, Jie Xu, Shaoting Zhang, Guotai WangAbstract
Histopathology is central to cancer diagnosis, but morphology in Hematoxylin and Eosin (HE)-stained images does not directly reveal the molecular states that characterize disease heterogeneity and inform tumor characterization, prognostic assessment, and biomarker discovery. Spatial Transcriptomics (ST) measures spatially resolved gene expression, providing molecular information within tissue architecture, yet differences in assay coverage and spot informativeness make paired HE--ST observations unequally reliable for representation learning. We propose Reliability-Guided Spatial Transcriptomics (REST) supervision with Biological Program Bank (BPB), a program-structured and reliability-guided ST-supervised training framework for predicting molecular information from H\&E images. REST constructs BPB from curated signature, pathway, and cell-type gene sets to provide a shared structure for ST encoding, reliability estimation, and molecular reconstruction. Guided by BPB, Spot-Reliability Contrastive Alignment (SRCA) measures the reliability of each spot from assay-level program coverage and spot-level activity dispersion, and reweights HE--ST alignment accordingly. Biology-Informed Program Reconstruction (BIPR) further uses learnable program queries to reconstruct member-gene expression from histological morphology. REST's training corpus comprised 209 samples (407,475 spots across 16 organs); evaluation used 70 disjoint samples (230,056 spots across eight organs) for gene-expression, pathway-activity, and cell-signature prediction. REST achieved the highest Macro correlation among state-of-the-art ST-supervised training methods and outperformed existing pathology foundation models. Code is available at this https URL.
Abstract (translated)
URL
https://arxiv.org/abs/2610.26988
PDF
-
Synthetic Image Oversampling for Rare-Class Representation Learning in Deep Facial Phenotyping
2026-10-16 16:43:59Miles Liao, Zhanliang Wang, Hongzhuo Chen, Kai WangAbstract
Recent deep facial phenotyping methods can support the recognition of genetic syndromes, but patient images are often scarce and unevenly distributed across disorders. Synthetic facial images offer a way to supplement the training data without collecting additional patient photographs. Their usefulness, however, depends on whether they improve recognition of real patients: generated images may introduce artifacts or repeat features already represented in the training set. It is therefore necessary to examine both how much synthetic augmentation to use and which disorders benefit. We investigate disease-specific synthetic oversampling using images from the Phenotypic Disease Image Database to augment a subset of the GestaltMatcher Database. We compare increasing augmentation levels in an image-based model, GestaltMatcher-Arc, and a multimodal model, GestaltMML, while keeping the real training and patient-disjoint evaluation partitions fixed. Repeated training runs assess overall and disease-specific accuracy, and an exploratory embedding analysis examines changes in class compactness and separation. Augmentation improves mean recognition accuracy in both training setups, although gains remain modest in GestaltMatcher-Arc and continue across the tested levels in GestaltMML. These aggregate improvements are accompanied by uneven disease-level responses, including reduced accuracy for some disorders. In the embedding analysis, disorders with fewer real training images tend to gain more class separation, but geometric changes do not consistently track classification performance. Together, the findings support synthetic oversampling for limited-data facial phenotyping and emphasize the need to assess its amount and benefit for individual disorders within each training setup.
Abstract (translated)
URL
https://arxiv.org/abs/2610.23730
PDF
-
OliO: ODE-based Linear Transition Operator for Self-Supervised Time Series Forecasting
2026-10-16 11:52:33Kwangryeol Park, Seulki LeeAbstract
Self-supervised representation learning has advanced time series forecasting by capturing robust features from unlabeled data. However, existing contrastive and masking-based methods often struggle to explicitly model the underlying temporal flow, either by treating time lag as noise or by disrupting the inherent temporal dynamics essential for forecasting. To address these limitations, we propose OliO (**O**DE-based **Li**near Transition **O**perator), a plug-and-play self-supervised learning method that learns bidirectional temporal flows as a continuous and structurally consistent dynamical system. OliO introduces a transition operator derived from linear Ordinary Differential Equations (ODEs) to align latent representations across arbitrary time shifts. By imposing a strictly upper triangular constraint on the transition matrix, we mathematically ensure numerical stability and enforce a robust polynomial boundary that effectively captures long-term dependencies while preventing the exponential divergence typically found in unconstrained ODE-based models. This structural constraint induces a temporally coherent representation space that preserves the underlying flow essential for accurate forecasting. Extensive experiments across various backbone architectures and benchmarks demonstrate that OliO achieves significant performance gains, providing Mean Squared Error (MSE) reductions of up to 5.75% over the most competitive grid-searched SOTA baselines. The code is available at *this https URL
Abstract (translated)
URL
https://arxiv.org/abs/2610.23345
PDF
