Text-to-Visualization (Text2VIS) enables users to create visualizations from natural language queries, making data insights more accessible. However, Text2VIS faces challenges in interpreting ambiguous queries, as users often express their visualization needs in imprecise language. To address this challenge, we introduce nvBench 2.0, a new benchmark designed to evaluate Text2VIS systems in scenarios involving ambiguous queries.

While recent multimodal large language models (MLLMs) have advanced automated ECG interpretation, they still face two key limitations: (1) insufficient multimodal synergy between ECG time series and ECG images, and (2) limited explainability in linking diagnoses to granular waveform evidence. We introduce GEM, the first MLLM unifying ECG time series, 12-lead ECG images and text for grounded and clinician-aligned ECG interpretation. GEM enables feature-grounded analysis, evidence-driven reasoning, and a clinician-like diagnostic process through three core innovations: a dual-encoder framework extracting complementary time series and image features, cross-modal alignment for effective multimodal understanding, and knowledge-guided instruction data generation for generating high-granularity grounding data (ECG-Grounding) linking diagnoses to measurable parameters (e.g., QRS/PR Intervals). Additionally, we propose the Grounded ECGUnderstanding task, a clinically motivated benchmark designed to comprehensively assess the MLLM's capability in grounded ECG understanding. Experimental results on both existing and our proposed benchmarks show GEM significantly improves predictive performance (CSN 7.4%), explainability (22.7%), and grounding (25.3%), making it a promising approach for real-world clinical applications.

Entity alignment (EA) aims to merge two knowledge graphs (KGs) by identifying equivalent entity pairs. Existing methods can be categorized into symbolic and neural models. Symbolic models, while precise, struggle with substructure heterogeneity and sparsity, whereas neural models, although effective, generally lack interpretability and cannot handle uncertainty. We propose NeuSymEA, a unified neuro-symbolic reasoning framework that combines the strengths of both methods to fully exploit the cross-KG structural pattern for robust entity alignment. NeuSymEA models the joint probability of all possible pairs' truth scores in a Markov random field, regulated by a set of rules, and optimizes it with the variational EM algorithm.

Large language models (LLMs) have emerged as a dominant AI paradigm due to their exceptional text understanding and generation capabilities. However, their tendency to generate inconsistent or erroneous outputs challenges their reliability, especially in high-stakes domains requiring accuracy and trustworthiness. Existing research primarily focuses on detecting and mitigating model misbehavior in general-purpose scenarios, often overlooking the potential of integrating domain-specific knowledge. In this work, we advance misbehavior detection by incorporating domain knowledge. The core idea is to design a general specification language that enables domain experts to customize domain-specific constraints in a lightweight and intuitive manner, supporting later runtime monitoring of LLM outputs.

Variant and gene interpretation are fundamental to personalized medicine and translational biomedicine. However, traditional approaches are manual and labor-intensive. Generative language models (LMs) can facilitate this process, accelerating the translation of fundamental research into clinically-actionable insights. While existing benchmarks have attempted to quantify the capabilities of LMs for interpreting scientific data, these studies focus on narrow tasks that do not translate to real-world research. To meet these challenges, we introduce CGBENCH, a robust benchmark that tests reasoning capabilities of LMs on scientific publications.

Machine learning-based decision support systems are increasingly deployed in clinical settings, where probabilistic scoring functions are used to inform and prioritize patient management decisions. However, widely used scoring rules, such as accuracy and AUC-ROC, fail to adequately reflect key clinical priorities, including calibration, robustness to distributional shifts, and sensitivity to asymmetric error costs. In this work, we propose a principled yet practical evaluation framework for selecting calibrated thresholded classifiers that explicitly accounts for uncertainty in class prevalences and domain-specific cost asymmetries. Building on the theory of proper scoring rules, particularly the Schervish representation, we derive an adjusted variant of cross-entropy (log score) that averages cost-weighted performance over clinically relevant ranges of class balance. The resulting evaluation is simple to apply, sensitive to clinical deployment conditions, and designed to prioritize models that are both calibrated and robust to real-world variations.

The interpretation of genomic sequences is crucial for understanding biological processes. To handle the growing volume of DNA sequence data, Genomic Foundation Models (GFMs) have been developed by adapting architectures and training paradigms from Large Language Models (LLMs). Despite their remarkable performance in DNA sequence classification tasks, there remains a lack of systematic understanding regarding the training and task-adaptation processes of GFMs. Moreover, existing GFMs cannot achieve state-of-the-art performance on both short and long-context tasks and lacks multimodal abilities.

Large language models (LLMs) have emerged as a dominant AI paradigm due to their exceptional text understanding and generation capabilities. However, their tendency to generate inconsistent or erroneous outputs challenges their reliability, especially in high-stakes domains requiring accuracy and trustworthiness. Existing research primarily focuses on detecting and mitigating model misbehavior in general-purpose scenarios, often overlooking the potential of integrating domain-specific knowledge. In this work, we advance misbehavior detection by incorporating domain knowledge. The core idea is to design a general specification language that enables domain experts to customize domain-specific constraints in a lightweight and intuitive manner, supporting later runtime monitoring of LLM outputs.

Correct model interpretation in high-stakes settings is critical, yet both post-hoc feature attribution methods and so-called intrinsically interpretable models can systematically attribute false-positive importance to non-informative features such as suppressor variables. Specifically, both linear models and their powerful non-linear generalisation such as General Additive Models (GAMs) are susceptible to spurious attributions to suppressors. We present a principled generalisation of activation patterns - originally developed to make linear models interpretable - to additive models, correctly rejecting suppressor effects for non-linear features. This yields PatternGAM, an importance attribution method based on univariate generative surrogate models for the broad family of additive models, and PatternQLR for polynomial models. Empirical evaluations on the XAI-TRIS benchmark with a novel false-negative invariant formulation of the earth mover's distance accuracy metric demonstrates significant improvements over popular feature attribution methods and the traditional interpretation of additive models. Finally, real-world case studies on the COMPAS and MIMIC-IV datasets provide new insights into the role of specific features by disentangling genuine target-related information from suppression effects that would mislead conventional GAM interpretations.

Variant and gene interpretation are fundamental to personalized medicine and translational biomedicine. However, traditional approaches are manual and labor-intensive. Generative language models (LMs) can facilitate this process, accelerating the translation of fundamental research into clinically-actionable insights. While existing benchmarks have attempted to quantify the capabilities of LMs for interpreting scientific data, these studies focus on narrow tasks that do not translate to real-world research. To meet these challenges, we introduce CGBench, a robust benchmark that tests reasoning capabilities of LMs on scientific publications.