ClinicalBench: Can LLMs Beat Traditional ML Models in Clinical Prediction?

Large Language Models (LLMs) hold great promise to revolutionize current clinical systems for their superior capacities on medical text processing tasks and medical licensing exams. Meanwhile, traditional ML models such as SVM and XGBoost have still been mainly adopted in clinical prediction tasks. An emerging question is Can LLMs beat traditional ML models in clinical prediction? Thus, we build a new benchmark ClinicalBench to comprehensively study the clinical predictive modeling capacities of both general-purpose and medical LLMs, and compare them with traditional ML models. ClinicalBench embraces three common clinical prediction tasks, two databases, 14 general-purpose LLMs, 8 medical LLMs, and 11 traditional ML models. Through extensive empirical investigation, we discover that both general-purpose and medical LLMs, even with different model scales, diverse prompting or fine-tuning strategies, still cannot beat traditional ML models in clinical prediction yet, shedding light on their potential deficiency in clinical reasoning and decision-making. We call for caution when practitioners adopt LLMs in clinical applications. ClinicalBench can be utilized to bridge the gap between LLMs' development for healthcare and real-world clinical practice.

MME-Finance: A Multimodal Finance Benchmark for Expert-level Understanding and Reasoning

In recent years, multimodal benchmarks for general domains have guided the rapid development of multimodal models on general tasks. However, the financial field has its peculiarities. It features unique graphical images (e.g., candlestick charts, technical indicator charts) and possesses a wealth of specialized financial knowledge (e.g., futures, turnover rate). Therefore, benchmarks from general fields often fail to measure the performance of multimodal models in the financial domain, and thus cannot effectively guide the rapid development of large financial models. To promote the development of large financial multimodal models, we propose MME-Finance, an bilingual open-ended and practical usage-oriented Visual Question Answering (VQA) benchmark. The characteristics of our benchmark are finance and expertise, which include constructing charts that reflect the actual usage needs of users (e.g., computer screenshots and mobile photography), creating questions according to the preferences in financial domain inquiries, and annotating questions by experts with 10+ years of experience in the financial industry. Additionally, we have developed a custom-designed financial evaluation system in which visual information is first introduced in the multi-modal evaluation process. Extensive experimental evaluations of 19 mainstream MLLMs are conducted to test their perception, reasoning, and cognition capabilities. The results indicate that models performing well on general benchmarks cannot do well on MME-Finance; for instance, the top-performing open-source and closed-source models obtain 65.69 (Qwen2VL-72B) and 63.18 (GPT-4o), respectively. Their performance is particularly poor in categories most relevant to finance, such as candlestick charts and technical indicator charts. In addition, we propose a Chinese version, which helps compare performance of MLLMs under a Chinese context.

Can Medical Vision-Language Pre-training Succeed with Purely Synthetic Data?

Medical Vision-Language Pre-training (MedVLP) has made significant progress in enabling zero-shot tasks for medical image understanding. However, training MedVLP models typically requires large-scale datasets with paired, high-quality image-text data, which are scarce in the medical domain. Recent advancements in Large Language Models (LLMs) and diffusion models have made it possible to generate large-scale synthetic image-text pairs. This raises the question: *Can MedVLP succeed using purely synthetic data?* To address this, we use off-the-shelf generative models to create synthetic radiology reports and paired Chest X-ray (CXR) images, and propose an automated pipeline to build a diverse, high-quality synthetic dataset, enabling a rigorous study that isolates model and training settings, focusing entirely from the data perspective. Our results show that MedVLP models trained *exclusively on synthetic data* outperform those trained on real data by **3.8%** in averaged AUC on zero-shot classification. Moreover, using a combination of synthetic and real data leads to a further improvement of **9.07%**. Additionally, MedVLP models trained on synthetic or mixed data consistently outperform those trained on real data in zero-shot grounding, as well as in fine-tuned classification and segmentation tasks. Our analysis suggests MedVLP trained on well-designed synthetic data can outperform models trained on real datasets, which may be limited by low-quality samples and long-tailed distributions.

From Hospital to Portables: A Universal ECG Foundation Model Built on 10+ Million Diverse Recordings

Artificial Intelligence (AI) has shown great promise in electrocardiogram (ECG) analysis and cardiovascular disease detection. However, developing a general AI-ECG model has been challenging due to inter-individual variability and the diversity of ECG diagnoses, limiting existing models to specific diagnostic tasks and datasets. Moreover, current AI-ECG models struggle to achieve comparable performance between single-lead and 12-lead ECGs, limiting the application of AI-ECG to portable and wearable ECG devices. To address these limitations, we introduce an ECG Foundation Model (ECGFounder), a general-purpose model that leverages real-world ECG annotations from cardiology experts to broaden the diagnostic capabilities of ECG analysis. ECGFounder is trained on over 10 million ECGs with 150 label categories from the Harvard-Emory ECG Database, enabling comprehensive cardiovascular disease diagnosis through ECG analysis. The model is designed to be both effective out-of-the-box and fine-tunable for downstream tasks, maximizing usability. More importantly, we extend its application to single-lead ECGs, enabling complex condition diagnoses and supporting various downstream tasks in mobile and remote monitoring scenarios. Experimental results demonstrate that ECGFounder achieves expert-level performance on internal validation sets for both 12-lead and single-lead ECGs, while also exhibiting strong classification performance and generalization across various diagnoses on external validation sets. When fine-tuned, ECGFounder outperforms baseline models in demographics detection, clinical event detection, and cross-modality cardiac rhythm diagnosis. The trained model and data will be publicly released upon publication through the bdsp.io. Our code is available at https://github.com/bdsp-core/ECGFounder.

FMBench: Benchmarking Fairness in Multimodal Large Language Models on Medical Tasks

Advancements in Multimodal Large Language Models (MLLMs) have significantly improved medical task performance, such as Visual Question Answering (VQA) and Report Generation (RG). However, the fairness of these models across diverse demographic groups remains underexplored, despite its importance in healthcare. This oversight is partly due to the lack of demographic diversity in existing medical multimodal datasets, which complicates the evaluation of fairness. In response, we propose FMBench, the first benchmark designed to evaluate the fairness of MLLMs performance across diverse demographic attributes. FMBench has the following key features: 1: It includes four demographic attributes: race, ethnicity, language, and gender, across two tasks, VQA and RG, under zero-shot settings. 2: Our VQA task is free-form, enhancing real-world applicability and mitigating the biases associated with predefined choices. 3: We utilize both lexical metrics and LLM-based metrics, aligned with clinical evaluations, to assess models not only for linguistic accuracy but also from a clinical perspective. Furthermore, we introduce a new metric, Fairness-Aware Performance (FAP), to evaluate how fairly MLLMs perform across various demographic attributes. We thoroughly evaluate the performance and fairness of eight state-of-the-art open-source MLLMs, including both general and medical MLLMs, ranging from 7B to 26B parameters on the proposed benchmark. We aim for FMBench to assist the research community in refining model evaluation and driving future advancements in the field. All data and code will be released upon acceptance.

How Does Diverse Interpretability of Textual Prompts Impact Medical Vision-Language Zero-Shot Tasks?

Recent advancements in medical vision-language pre-training (MedVLP) have significantly enhanced zero-shot medical vision tasks such as image classification by leveraging large-scale medical image-text pair pre-training. However, the performance of these tasks can be heavily influenced by the variability in textual prompts describing the categories, necessitating robustness in MedVLP models to diverse prompt styles. Yet, this sensitivity remains underexplored. In this work, we are the first to systematically assess the sensitivity of three widely-used MedVLP methods to a variety of prompts across 15 different diseases. To achieve this, we designed six unique prompt styles to mirror real clinical scenarios, which were subsequently ranked by interpretability. Our findings indicate that all MedVLP models evaluated show unstable performance across different prompt styles, suggesting a lack of robustness. Additionally, the models' performance varied with increasing prompt interpretability, revealing difficulties in comprehending complex medical concepts. This study underscores the need for further development in MedVLP methodologies to enhance their robustness to diverse zero-shot prompts.

TorchDA: A Python package for performing data assimilation with deep learning forward and transformation functions

Data assimilation techniques are often confronted with challenges handling complex high dimensional physical systems, because high precision simulation in complex high dimensional physical systems is computationally expensive and the exact observation functions that can be applied in these systems are difficult to obtain. It prompts growing interest in integrating deep learning models within data assimilation workflows, but current software packages for data assimilation cannot handle deep learning models inside. This study presents a novel Python package seamlessly combining data assimilation with deep neural networks to serve as models for state transition and observation functions. The package, named TorchDA, implements Kalman Filter, Ensemble Kalman Filter (EnKF), 3D Variational (3DVar), and 4D Variational (4DVar) algorithms, allowing flexible algorithm selection based on application requirements. Comprehensive experiments conducted on the Lorenz 63 and a two-dimensional shallow water system demonstrate significantly enhanced performance over standalone model predictions without assimilation. The shallow water analysis validates data assimilation capabilities mapping between different physical quantity spaces in either full space or reduced order space. Overall, this innovative software package enables flexible integration of deep learning representations within data assimilation, conferring a versatile tool to tackle complex high dimensional dynamical systems across scientific domains.

LOOK-M: Look-Once Optimization in KV Cache for Efficient Multimodal Long-Context Inference

Long-context Multimodal Large Language Models (MLLMs) demand substantial computational resources for inference as the growth of their multimodal Key-Value (KV) cache, in response to increasing input lengths, challenges memory and time efficiency. Unlike single-modality LLMs that manage only textual contexts, the KV cache of long-context MLLMs includes representations from multiple images with temporal and spatial relationships and related textual contexts. The predominance of image tokens means traditional optimizations for LLMs' KV caches are unsuitable for multimodal long-context settings, and no prior works have addressed this challenge. In this work, we introduce LOOK-M, a pioneering, fine-tuning-free approach that efficiently reduces the multimodal KV cache size while maintaining performance comparable to a full cache. We observe that during prompt prefill, the model prioritizes more textual attention over image features, and based on the multimodal interaction observation, a new proposed text-prior method is explored to compress the KV cache. Furthermore, to mitigate the degradation of image contextual information, we propose several compensatory strategies using KV pairs merging. LOOK-M demonstrates that with a significant reduction in KV Cache memory usage, such as reducing it by 80% in some cases, it not only achieves up to 1.5x faster decoding but also maintains or even enhances performance across a variety of long context multimodal tasks.

Benchmarking and Boosting Radiology Report Generation for 3D High-Resolution Medical Images

Automatic radiology report generation can significantly benefit the labor-intensive process of report writing by radiologists, especially for 3D radiographs like CT scans, which are crucial for broad clinical diagnostics yet underexplored compared to 2D radiographs. Existing methods often handle 3D volumes either slice-wise or with aggressive downsampling due to current GPU memory limitations, which results in a loss of the inherent 3D nature and critical details. To overcome these issues, we introduce a novel framework that efficiently and effectively generates radiology reports for high-resolution (HR) 3D volumes, based on large language models (LLMs). Specifically, our framework utilizes low-resolution (LR) visual tokens as queries to mine information from HR tokens, preserving detailed HR information while reducing computational costs by only processing HR informed LR visual queries. Further benefiting the field, we curate and release BIMCV-RG, a new dataset with 5,328 HR 3D volumes and paired reports, establishing the first benchmarks for report generation from 3D HR medical images. Our method consistently surpasses existing methods on this benchmark across three different settings: normal-resolution, high-resolution inputs, and zero-shot domain transfer, all at an acceptable computational cost, trainable on a single A100-80G.

Reverse the auditory processing pathway: Coarse-to-fine audio reconstruction from fMRI

Drawing inspiration from the hierarchical processing of the human auditory system, which transforms sound from low-level acoustic features to high-level semantic understanding, we introduce a novel coarse-to-fine audio reconstruction method. Leveraging non-invasive functional Magnetic Resonance Imaging (fMRI) data, our approach mimics the inverse pathway of auditory processing. Initially, we utilize CLAP to decode fMRI data coarsely into a low-dimensional semantic space, followed by a fine-grained decoding into the high-dimensional AudioMAE latent space guided by semantic features. These fine-grained neural features serve as conditions for audio reconstruction through a Latent Diffusion Model (LDM). Validation on three public fMRI datasets-Brain2Sound, Brain2Music, and Brain2Speech-underscores the superiority of our coarse-to-fine decoding method over stand-alone fine-grained approaches, showcasing state-of-the-art performance in metrics like FD, FAD, and KL. Moreover, by employing semantic prompts during decoding, we enhance the quality of reconstructed audio when semantic features are suboptimal. The demonstrated versatility of our model across diverse stimuli highlights its potential as a universal brain-to-audio framework. This research contributes to the comprehension of the human auditory system, pushing boundaries in neural decoding and audio reconstruction methodologies.