Transcoder-based Circuit Analysis for Interpretable Single-Cell Foundation Models

Single-cell foundation models (scFMs) have demonstrated state-of-the-art performance on various tasks, such as cell-type annotation and perturbation response prediction, by learning gene regulatory networks from large-scale transcriptome data. However, a significant challenge remains: the decision-making processes of these models are less interpretable compared to traditional methods like differential gene expression analysis. Recently, transcoders have emerged as a promising approach for extracting interpretable decision circuits from large language models (LLMs). In this work, we train a transcoder on the cell2sentence (C2S) model, a state-of-the-art scFM. By leveraging the trained transcoder, we extract internal decision-making circuits from the C2S model. We demonstrate that the discovered circuits correspond to real-world biological mechanisms, confirming the potential of transcoders to uncover biologically plausible pathways within complex single-cell models.

CAG-VLM: Fine-Tuning of a Large-Scale Model to Recognize Angiographic Images for Next-Generation Diagnostic Systems

Coronary angiography (CAG) is the gold-standard imaging modality for evaluating coronary artery disease, but its interpretation and subsequent treatment planning rely heavily on expert cardiologists. To enable AI-based decision support, we introduce a two-stage, physician-curated pipeline and a bilingual (Japanese/English) CAG image-report dataset. First, we sample 14,686 frames from 539 exams and annotate them for key-frame detection and left/right laterality; a ConvNeXt-Base CNN trained on this data achieves 0.96 F1 on laterality classification, even on low-contrast frames. Second, we apply the CNN to 243 independent exams, extract 1,114 key frames, and pair each with its pre-procedure report and expert-validated diagnostic and treatment summary, yielding a parallel corpus. We then fine-tune three open-source VLMs (PaliGemma2, Gemma3, and ConceptCLIP-enhanced Gemma3) via LoRA and evaluate them using VLScore and cardiologist review. Although PaliGemma2 w/LoRA attains the highest VLScore, Gemma3 w/LoRA achieves the top clinician rating (mean 7.20/10); we designate this best-performing model as CAG-VLM. These results demonstrate that specialized, fine-tuned VLMs can effectively assist cardiologists in generating clinical reports and treatment recommendations from CAG images.

Video CLIP Model for Multi-View Echocardiography Interpretation

Echocardiography involves recording videos of the heart using ultrasound, enabling clinicians to evaluate its condition. Recent advances in large-scale vision-language models (VLMs) have garnered attention for automating the interpretation of echocardiographic videos. However, most existing VLMs proposed for medical interpretation thus far rely on single-frame (i.e., image) inputs. Consequently, these image-based models often exhibit lower diagnostic accuracy for conditions identifiable through cardiac motion. Moreover, echocardiographic videos are recorded from various views that depend on the direction of ultrasound emission, and certain views are more suitable than others for interpreting specific conditions. Incorporating multiple views could potentially yield further improvements in accuracy. In this study, we developed a video-language model that takes five different views and full video sequences as input, training it on pairs of echocardiographic videos and clinical reports from 60,747 cases. Our experiments demonstrate that this expanded approach achieves higher interpretation accuracy than models trained with only single-view videos or with still images.

Application of Contrastive Learning on ECG Data: Evaluating Performance in Japanese and Classification with Around 100 Labels

The electrocardiogram (ECG) is a fundamental tool in cardiovascular diagnostics due to its powerful and non-invasive nature. One of the most critical usages is to determine whether more detailed examinations are necessary, with users ranging across various levels of expertise. Given this diversity in expertise, it is essential to assist users to avoid critical errors. Recent studies in machine learning have addressed this challenge by extracting valuable information from ECG data. Utilizing language models, these studies have implemented multimodal models aimed at classifying ECGs according to labeled terms. However, the number of classes was reduced, and it remains uncertain whether the technique is effective for languages other than English. To move towards practical application, we utilized ECG data from regular patients visiting hospitals in Japan, maintaining a large number of Japanese labels obtained from actual ECG readings. Using a contrastive learning framework, we found that even with 98 labels for classification, our Japanese-based language model achieves accuracy comparable to previous research. This study extends the applicability of multimodal machine learning frameworks to broader clinical studies and non-English languages.