Learning to Read Where to Look: Disease-Aware Vision-Language Pretraining for 3D CT

Recent 3D CT vision-language models align volumes with reports via contrastive pretraining, but typically rely on limited public data and provide only coarse global supervision. We train a 3D CT vision-language model on 98k report-volume pairs (50k patients) collected at a single hospital, combined with public datasets, using SigLIP-style contrastive pretraining together with prompt-based disease supervision in the shared vision-text embedding space. On CT-RATE, our model achieves state-of-the-art text-to-image retrieval (R@10 31.5 vs. 22.2) and competitive disease classification (AUC 83.8 vs. 83.8), with consistent results on Rad-ChestCT (AUC 77.0 vs. 77.3). We further observe that radiologists routinely reference specific images within their reports (e.g., ``series X, image Y''), linking textual descriptions to precise axial locations. We automatically mine 262k such snippet-slice pairs and introduce the task of intra-scan snippet localization -- predicting the axial depth referred to by a text snippet -- reducing mean absolute error to 36.3 mm at 12 mm feature resolution, compared with 67.0 mm for the best baseline. Adding this localization objective leaves retrieval and classification broadly unchanged within confidence bounds, yielding a single unified model for retrieval, classification, and intra-scan grounding.

The Wikidata Query Logs Dataset

We present the Wikidata Query Logs (WDQL) dataset, a dataset consisting of 200k question-query pairs over the Wikidata knowledge graph. It is over 6x larger than the largest existing Wikidata datasets of similar format without relying on template-generated queries. Instead, we construct it using real-world SPARQL queries sent to the Wikidata Query Service and generate questions for them. Since these log-based queries are anonymized, and therefore often do not produce results, a significant amount of effort is needed to convert them back into meaningful SPARQL queries. To achieve this, we present an agent-based method that iteratively de-anonymizes, cleans, and verifies queries against Wikidata while also generating corresponding natural-language questions. We demonstrate the dataset's benefit for training question-answering methods. All WDQL assets, as well as the agent code, are publicly available under a permissive license.

A systematic review of challenges and proposed solutions in modeling multimodal data

Multimodal data modeling has emerged as a powerful approach in clinical research, enabling the integration of diverse data types such as imaging, genomics, wearable sensors, and electronic health records. Despite its potential to improve diagnostic accuracy and support personalized care, modeling such heterogeneous data presents significant technical challenges. This systematic review synthesizes findings from 69 studies to identify common obstacles, including missing modalities, limited sample sizes, dimensionality imbalance, interpretability issues, and finding the optimal fusion techniques. We highlight recent methodological advances, such as transfer learning, generative models, attention mechanisms, and neural architecture search that offer promising solutions. By mapping current trends and innovations, this review provides a comprehensive overview of the field and offers practical insights to guide future research and development in multimodal modeling for medical applications.

Using Knowledge Graphs to harvest datasets for efficient CLIP model training

Training high-quality CLIP models typically requires enormous datasets, which limits the development of domain-specific models -- especially in areas that even the largest CLIP models do not cover well -- and drives up training costs. This poses challenges for scientific research that needs fine-grained control over the training procedure of CLIP models. In this work, we show that by employing smart web search strategies enhanced with knowledge graphs, a robust CLIP model can be trained from scratch with considerably less data. Specifically, we demonstrate that an expert foundation model for living organisms can be built using just 10M images. Moreover, we introduce EntityNet, a dataset comprising 33M images paired with 46M text descriptions, which enables the training of a generic CLIP model in significantly reduced time.