Hierarchical Prototype-based Domain Priors for Multiple Instance Learning in Multimodal Histopathology Analysis

Digital pathology has fundamentally altered diagnostic workflows by enabling the computational analysis of gigapixel Whole Slide Images (WSIs), yet effectively deciphering their complex tumor microenvironments remains a formidable challenge. Existing Multiple Instance Learning (MIL) frameworks typically treat Whole Slide Images as unstructured bags of patches, discarding critical morphological semantics and spatial geometry. This lack of inductive bias often leads to overfitting on background noise and fails to align visual features with high-level diagnostic knowledge. To overcome these limitations, we propose the Hierarchical Prototype-based Domain Priors (HPDP) framework, a unified multimodal approach for joint histopathology diagnosis and prognosis. HPDP mitigates the data-driven "black box" issue by introducing a Morphologically Anchored Prototype System (MAPS), which anchors learning to interpretable morphological clusters, and a Sinusoidal Positional Encoder (SPE) to explicitly model tissue architecture. Furthermore, we bridge the semantic gap via a Hierarchical Cross-Modal Alignment (HCMA) module, using Large Language Model (LLM)-generated descriptions to contextually refine visual representations. Extensive experiments across seven cancer cohorts demonstrate that HPDP consistently achieves state-of-the-art performance with superior robustness and interpretability.

Sample-efficient Neuro-symbolic Proximal Policy Optimization

Deep Reinforcement Learning (DRL) algorithms often require a large amount of data and struggle in sparse-reward domains with long planning horizons and multiple sub-goals. In this paper, we propose a neuro-symbolic extension of Proximal Policy Optimization (PPO) that transfers partial logical policy specifications learned in easier instances to guide learning in more challenging settings. We introduce two integrations of symbolic guidance: (i) H-PPO-Product, which biases the action distribution at sampling time, and (ii) H-PPO-SymLoss, which augments the PPO loss with a symbolic regularization term. We evaluate our methods on three benchmarks (OfficeWorld, WaterWorld, and DoorKey), showing consistently faster learning and higher return at convergence than PPO and a Reward Machine baseline, also under imperfect symbolic knowledge.

Explanation Quality Assessment as Ranking with Listwise Rewards

We reformulate explanation quality assessment as a ranking problem rather than a generation problem. Instead of optimizing models to produce a single "best" explanation token-by-token, we train reward models to discriminate among multiple candidate explanations and learn their relative quality. Concretely, we construct per-instance candidate sets with graded quality levels and train listwise and pairwise ranking models (ListNet, LambdaRank, RankNet) to preserve ordinal structure and avoid score compression typical of pointwise regression or binary preference objectives. We observe three findings: First, ranking losses consistently outperform regression on score separation across all domains tested. Second, the optimal ranking loss depends on data characteristics: listwise objectives excel with well-separated quality tiers, while pairwise methods are more robust to noisy natural annotations. Third, when trained on carefully curated and well-structured data, small encoder models can match models that are orders of magnitude larger, suggesting that data quality matters more than model scale. Finally, when used as rewards in policy optimization, ranking-based scores enable stable convergence in settings where regression-based rewards fail entirely. Code and data are available at: https://github.com/Tankiit/PPO_Learning_to_rank

Weakly Supervised Multicenter Nancy Index Scoring in Ulcerative Colitis Using Foundation Models

Histologic assessment of ulcerative colitis (UC) activity is an important endpoint in clinical trials and routine care, but manual grading with indices such as the Nancy histological index (NHI) is time-consuming and prone to observer variability. While computational pathology methods can automate scoring, many approaches depend on dense region-level annotations, which are costly to obtain, particularly in heterogeneous, multicenter cohorts. We propose a weakly supervised multiple instance learning (MIL) approach for whole-slide images that learns from case- and slide-level NHI labels, leveraging foundation models. Our method targets clinically relevant endpoints, including neutrophilic activity and derived Nancy-low/high groupings, enabling full five-grade NHI prediction. On a multicenter dataset of H&E-stained colon biopsies from three hospitals (2019-2025), we evaluate multiple foundation model encoders and aggregation strategies. We find that foundation model choice and resolution substantially affect performance, with Virchow2 providing the most consistent gains, and that a simple ensembling rule improves five-grade NHI prediction compared to a hierarchical gating baseline. Overall, our results demonstrate that weakly supervised MIL with modern foundation-model representations can provide robust, interpretable UC histology activity assessment in realistic multicenter settings.

Negative Ontology of True Target for Machine Learning: Towards Evaluation and Learning under Democratic Supervision

This article philosophically examines how shifts in assumptions regarding the existence and non-existence of the true target (TT) give rise to new perspectives and insights for machine learning (ML)-based predictive modeling and, correspondingly, proposes a knowledge system for evaluation and learning under Democratic Supervision. By systematically analysing the existence assumption of the TT in current mainstream ML paradigms, we explicitly adopt a negative ontology perspective, positing that the TT does not objectively exist in the real world, and, grounded in this non-existence assumption, define Democratic Supervision for ML. We further present Multiple Inaccurate True Targets (MIATTs) as an instance-level realization of Democratic Supervision. Building upon MIATTs, we derive principles, for the logic-driven generation and assessment of MIATTs, a logical assessment formulation for evaluation with MIATTs, and undefinable true target learning for learning with MIATTs. Based on these components, we establish the evaluation and learning with MIATTs (EL-MIATTs) framework for ML-based predictive modelling. A real-world application demonstrates the potential of the proposed EL-MIATTs framework in supporting education and professional development for individuals, aligning with prior discussions of Democratic Supervision in the fields of education and professional development.

Learning to Identify Out-of-Distribution Objects for 3D LiDAR Anomaly Segmentation

Understanding the surrounding environment is fundamental in autonomous driving and robotic perception. Distinguishing between known classes and previously unseen objects is crucial in real-world environments, as done in Anomaly Segmentation. However, research in the 3D field remains limited, with most existing approaches applying post-processing techniques from 2D vision. To cover this lack, we propose a new efficient approach that directly operates in the feature space, modeling the feature distribution of inlier classes to constrain anomalous samples. Moreover, the only publicly available 3D LiDAR anomaly segmentation dataset contains simple scenarios, with few anomaly instances, and exhibits a severe domain gap due to its sensor resolution. To bridge this gap, we introduce a set of mixed real-synthetic datasets for 3D LiDAR anomaly segmentation, built upon established semantic segmentation benchmarks, with multiple out-of-distribution objects and diverse, complex environments. Extensive experiments demonstrate that our approach achieves state-of-the-art and competitive results on the existing real-world dataset and the newly introduced mixed datasets, respectively, validating the effectiveness of our method and the utility of the proposed datasets. Code and datasets are available at https://simom0.github.io/lido-page/.

Clinically-Informed Modeling for Pediatric Brain Tumor Classification from Whole-Slide Histopathology Images

Accurate diagnosis of pediatric brain tumors, starting with histopathology, presents unique challenges for deep learning, including severe data scarcity, class imbalance, and fine-grained morphologic overlap across diagnostically distinct subtypes. While pathology foundation models have advanced patch-level representation learning, their effective adaptation to weakly supervised pediatric brain tumor classification under limited data remains underexplored. In this work, we introduce an expert-guided contrastive fine-tuning framework for pediatric brain tumor diagnosis from whole-slide images (WSI). Our approach integrates contrastive learning into slide-level multiple instance learning (MIL) to explicitly regularize the geometry of slide-level representations during downstream fine-tuning. We propose both a general supervised contrastive setting and an expert-guided variant that incorporates clinically informed hard negatives targeting diagnostically confusable subtypes. Through comprehensive experiments on pediatric brain tumor WSI classification under realistic low-sample and class-imbalanced conditions, we demonstrate that contrastive fine-tuning yields measurable improvements in fine-grained diagnostic distinctions. Our experimental analyses reveal complementary strengths across different contrastive strategies, with expert-guided hard negatives promoting more compact intra-class representations and improved inter-class separation. This work highlights the importance of explicitly shaping slide-level representations for robust fine-grained classification in data-scarce pediatric pathology settings.

Volume Transformer: Revisiting Vanilla Transformers for 3D Scene Understanding

Transformers have become a common foundation across deep learning, yet 3D scene understanding still relies on specialized backbones with strong domain priors. This keeps the field isolated from the broader Transformer ecosystem, limiting the transfer of new advances as well as the benefits of increasingly optimized software and hardware stacks. To bridge this gap, we adapt the vanilla Transformer encoder to 3D scenes with minimal modifications. Given an input 3D scene, we partition it into volumetric patch tokens, process them with full global self-attention, and inject positional information via a 3D extension of rotary positional embeddings. We call the resulting model the Volume Transformer (Volt) and apply it to 3D semantic segmentation. Naively training Volt on standard 3D benchmarks leads to shortcut learning, highlighting the limited scale of current 3D supervision. To overcome this, we introduce a data-efficient training recipe based on strong 3D augmentations, regularization, and distillation from a convolutional teacher, making Volt competitive with state-of-the-art methods. We then scale supervision through joint training on multiple datasets and show that Volt benefits more from increased scale than domain-specific 3D backbones, achieving state-of-the-art results across indoor and outdoor datasets. Finally, when used as a drop-in backbone in a standard 3D instance segmentation pipeline, Volt again sets a new state of the art, highlighting its potential as a simple, scalable, general-purpose backbone for 3D scene understanding.

Model-Agnostic Meta Learning for Class Imbalance Adaptation

Class imbalance is a widespread challenge in NLP tasks, significantly hindering robust performance across diverse domains and applications. We introduce Hardness-Aware Meta-Resample (HAMR), a unified framework that adaptively addresses both class imbalance and data difficulty. HAMR employs bi-level optimizations to dynamically estimate instance-level weights that prioritize genuinely challenging samples and minority classes, while a neighborhood-aware resampling mechanism amplifies training focus on hard examples and their semantically similar neighbors. We validate HAMR on six imbalanced datasets covering multiple tasks and spanning biomedical, disaster response, and sentiment domains. Experimental results show that HAMR achieves substantial improvements for minority classes and consistently outperforms strong baselines. Extensive ablation studies demonstrate that our proposed modules synergistically contribute to performance gains and highlight HAMR as a flexible and generalizable approach for class imbalance adaptation. Code is available at https://github.com/trust-nlp/ImbalanceLearning.

Spatiotemporal Link Formation Prediction in Social Learning Networks Using Graph Neural Networks

Social learning networks (SLNs) are graphical representations that capture student interactions within educational settings (e.g., a classroom), with nodes representing students and edges denoting interactions. Accurately predicting future interactions in these networks (i.e., link prediction) is crucial for enabling effective collaborative learning, supporting timely instructional interventions, and informing the design of effective group-based learning activities. However, traditional link prediction approaches are typically tuned to general online social networks (OSNs), often overlooking the complex, non-Euclidean, and dynamically evolving structure of SLNs, thus limiting their effectiveness in educational settings. In this work, we propose a graph neural network (GNN) framework that jointly considers the temporal evolution within classrooms and spatial aggregation across classrooms to perform link prediction in SLNs. Specifically, we analyze link prediction performance of GNNs over the SLNs of four distinct classrooms across their (i) temporal evolutions (varying time instances), (ii) spatial aggregations (joint SLN analysis), and (iii) varying spatial aggregations at varying temporal evolutions throughout the course. Our results indicate statistically significant performance improvements in the prediction of future links as the courses progress temporally. Aggregating SLNs from multiple classrooms generally enhances model performance as well, especially in sparser datasets. Moreover, we find that jointly leveraging both the temporal evolution and spatial aggregation of SLNs significantly outperforms conventional baseline approaches that analyze classrooms in isolation. Our findings demonstrate the efficacy of educationally meaningful link predictions, with direct implications for early-course decision-making and scalable learning analytics in and across classroom settings.