End-to-end deep learning models fed with multi-band galaxy images are powerful data-driven tools used to estimate galaxy physical properties in the absence of spectroscopy. However, due to a lack of interpretability and the associational nature of such models, it is difficult to understand how the information that is included in addition to integrated photometry (e.g., morphology) contributes to the estimation task. Improving our understanding in this field would enable further advances into unraveling the physical connections among galaxy properties and optimizing data exploitation. Therefore, our work is aimed at interpreting the deep learning-based estimation of stellar mass via two interpretability techniques: causal analysis and mutual information decomposition. The former reveals the causal paths between multiple variables beyond nondirectional statistical associations, while the latter quantifies the multicomponent contributions (i.e., redundant, unique, and synergistic) of different input data to the stellar mass estimation. Using data from the Sloan Digital Sky Survey (SDSS) and the Wide-field Infrared Survey Explorer (WISE), we obtained meaningful results that provide physical interpretations for image-based models. Our work demonstrates the gains from combining deep learning with interpretability techniques, and holds promise in promoting more data-driven astrophysical research (e.g., astrophysical parameter estimations and investigations on complex multivariate physical processes).

Ultrasound-based risk stratification of thyroid nodules is a critical clinical task, but it suffers from high inter-observer variability. While many deep learning (DL) models function as "black boxes," we propose a fully automated, two-stage framework for interpretable malignancy prediction. Our method achieves interpretability by forcing the model to focus only on clinically relevant regions. First, a TransUNet model automatically segments the thyroid nodule. The resulting mask is then used to create a region of interest around the nodule, and this localised image is fed directly into a ResNet-18 classifier. We evaluated our framework using 5-fold cross-validation on a clinical dataset of 349 images, where it achieved a high F1-score of 0.852 for predicting malignancy. To validate its performance, we compared it against a strong baseline using a Random Forest classifier with hand-crafted morphological features, which achieved an F1-score of 0.829. The superior performance of our DL framework suggests that the implicit visual features learned from the localised nodule are more predictive than explicit shape features alone. This is the first fully automated end-to-end pipeline for both detecting thyroid nodules on ultrasound images and predicting their malignancy.

Tokenization is a critical component of language model pretraining, yet standard tokenization methods often prioritize information-theoretical goals like high compression and low fertility rather than linguistic goals like morphological alignment. In fact, they have been shown to be suboptimal for morphologically rich languages, where tokenization quality directly impacts downstream performance. In this work, we investigate morphologically-aware tokenization for Latin, a morphologically rich language that is medium-resource in terms of pretraining data, but high-resource in terms of curated lexical resources -- a distinction that is often overlooked but critical in discussions of low-resource language modeling. We find that morphologically-guided tokenization improves overall performance on four downstream tasks. Performance gains are most pronounced for out of domain texts, highlighting our models' improved generalization ability. Our findings demonstrate the utility of linguistic resources to improve language modeling for morphologically complex languages. For low-resource languages that lack large-scale pretraining data, the development and incorporation of linguistic resources can serve as a feasible alternative to improve LM performance.

Colorectal cancer (CRC) remains the third most prevalent malignancy globally, with approximately 154,000 new cases and 54,000 projected deaths anticipated for 2025. The recent advancement of foundation models in computational pathology has been largely propelled by task agnostic methodologies that can overlook organ-specific crucial morphological patterns that represent distinct biological processes that can fundamentally influence tumor behavior, therapeutic response, and patient outcomes. The aim of this study is to develop a novel, interpretable AI model, PRISM (Prognostic Representation of Integrated Spatial Morphology), that incorporates a continuous variability spectrum within each distinct morphology to characterize phenotypic diversity and reflecting the principle that malignant transformation occurs through incremental evolutionary processes rather than abrupt phenotypic shifts. PRISM is trained on 8.74 million histological images extracted from surgical resection specimens of 424 patients with stage III CRC. PRISM achieved superior prognostic performance for five-year OS (AUC = 0.70 +- 0.04; accuracy = 68.37% +- 4.75%; HR = 3.34, 95% CI = 2.28-4.90; p < 0.0001), outperforming existing CRC-specific methods by 15% and AI foundation models by ~23% accuracy. It showed sex-agnostic robustness (AUC delta = 0.02; accuracy delta = 0.15%) and stable performance across clinicopathological subgroups, with minimal accuracy fluctuation (delta = 1.44%) between 5FU/LV and CPT-11/5FU/LV regimens, replicating the Alliance cohort finding of no survival difference between treatments.

Large-scale biological discovery requires integrating massive, heterogeneous datasets like those from the JUMP Cell Painting consortium, but technical batch effects and a lack of generalizable models remain critical roadblocks. To address this, we introduce CellPainTR, a Transformer-based architecture designed to learn foundational representations of cellular morphology that are robust to batch effects. Unlike traditional methods that require retraining on new data, CellPainTR's design, featuring source-specific context tokens, allows for effective out-of-distribution (OOD) generalization to entirely unseen datasets without fine-tuning. We validate CellPainTR on the large-scale JUMP dataset, where it outperforms established methods like ComBat and Harmony in both batch integration and biological signal preservation. Critically, we demonstrate its robustness through a challenging OOD task on the unseen Bray et al. dataset, where it maintains high performance despite significant domain and feature shifts. Our work represents a significant step towards creating truly foundational models for image-based profiling, enabling more reliable and scalable cross-study biological analysis.

However, current sequencing-based technologies suffer from low spatial resolution, and substantial inter-tissue variability in protein expression further compromises the performance of existing molecular data prediction methods. In this work, we introduce the novel task of spatial super-resolution for sequencing-based spatial proteomics (seq-SP) and, to the best of our knowledge, propose the first deep learning model for this task--Neural Proteomics Fields (NPF). NPF formulates seq-SP as a protein reconstruction problem in continuous space by training a dedicated network for each tissue. The model comprises a Spatial Modeling Module, which learns tissue-specific protein spatial distributions, and a Morphology Modeling Module, which extracts tissue-specific morphological features. Furthermore, to facilitate rigorous evaluation, we establish an open-source benchmark dataset, Pseudo-Visium SP, for this task. Experimental results demonstrate that NPF achieves state-of-the-art performance with fewer learnable parameters, underscoring its potential for advancing spatial proteomics research. Our code and dataset are publicly available at https://github.com/Bokai-Zhao/NPF.

This study explores which factors of the visual design of a robot may influence how humans would place it in a collaborative cooking scenario and how these features may influence task delegation. Human participants were placed in a Virtual Reality (VR) environment and asked to set up a kitchen for cooking alongside a robot companion while considering the robot's morphology. We collected multimodal data for the arrangements created by the participants, transcripts of their think-aloud as they were performing the task, and transcripts of their answers to structured post-task questionnaires. Based on analyzing this data, we formulate several hypotheses: humans prefer to collaborate with biomorphic robots; human beliefs about the sensory capabilities of robots are less influenced by the morphology of the robot than beliefs about action capabilities; and humans will implement fewer avoidance strategies when sharing space with gracile robots. We intend to verify these hypotheses in follow-up studies.

Robot appearance crucially shapes Human-Robot Interaction (HRI) but is typically described via broad categories like anthropomorphic, zoomorphic, or technical. More precise approaches focus almost exclusively on anthropomorphic features, which fail to classify robots across all types, limiting the ability to draw meaningful connections between robot design and its effect on interaction. In response, we present MetaMorph, a comprehensive framework for classifying robot morphology. Using a metamodeling approach, MetaMorph was synthesized from 222 robots in the IEEE Robots Guide, offering a structured method for comparing visual features. This model allows researchers to assess the visual distances between robot models and explore optimal design traits tailored to different tasks and contexts.

Within the context of the mathematical formulation of Merge and the Strong Minimalist Thesis, we present a mathematical model of the morphology-syntax interface. In this setting, morphology has compositional properties responsible for word formation, organized into a magma of morphological trees. However, unlike syntax, we do not have movement within morphology. A coproduct decomposition exists, but it requires extending the set of morphological trees beyond those which are generated solely by the magma, to a larger set of possible morphological inputs to syntactic trees. These participate in the formation of morphosyntactic trees as an algebra over an operad, and a correspondence between algebras over an operad . The process of structure formation for morphosyntactic trees can then be described in terms of this operadic correspondence that pairs syntactic and morphological data and the morphology coproduct. We reinterpret in this setting certain operations of Distributed Morphology as transformation that allow for flexibility in moving the boundary between syntax and morphology within the morphosyntactic objects.

This paper presents UD-NewsCrawl, the largest Tagalog treebank to date, containing 15.6k trees manually annotated according to the Universal Dependencies framework. We detail our treebank development process, including data collection, pre-processing, manual annotation, and quality assurance procedures. We provide baseline evaluations using multiple transformer-based models to assess the performance of state-of-the-art dependency parsers on Tagalog. We also highlight challenges in the syntactic analysis of Tagalog given its distinctive grammatical properties, and discuss its implications for the annotation of this treebank. We anticipate that UD-NewsCrawl and our baseline model implementations will serve as valuable resources for advancing computational linguistics research in underrepresented languages like Tagalog.