BrainMVP: Multi-modal Vision Pre-training for Brain Image Analysis using Multi-parametric MRI

Accurate diagnosis of brain abnormalities is greatly enhanced by the inclusion of complementary multi-parametric MRI imaging data. There is significant potential to develop a universal pre-training model that can be quickly adapted for image modalities and various clinical scenarios. However, current models often rely on uni-modal image data, neglecting the cross-modal correlations among different image modalities or struggling to scale up pre-training in the presence of missing modality data. In this paper, we propose BrainMVP, a multi-modal vision pre-training framework for brain image analysis using multi-parametric MRI scans. First, we collect 16,022 brain MRI scans (over 2.4 million images), encompassing eight MRI modalities sourced from a diverse range of centers and devices. Then, a novel pre-training paradigm is proposed for the multi-modal MRI data, addressing the issue of missing modalities and achieving multi-modal information fusion. Cross-modal reconstruction is explored to learn distinctive brain image embeddings and efficient modality fusion capabilities. A modality-wise data distillation module is proposed to extract the essence representation of each MR image modality for both the pre-training and downstream application purposes. Furthermore, we introduce a modality-aware contrastive learning module to enhance the cross-modality association within a study. Extensive experiments on downstream tasks demonstrate superior performance compared to state-of-the-art pre-training methods in the medical domain, with Dice Score improvement of 0.28%-14.47% across six segmentation benchmarks and a consistent accuracy improvement of 0.65%-18.07% in four individual classification tasks.

Cost-effective Instruction Learning for Pathology Vision and Language Analysis

The advent of vision-language models fosters the interactive conversations between AI-enabled models and humans. Yet applying these models into clinics must deal with daunting challenges around large-scale training data, financial, and computational resources. Here we propose a cost-effective instruction learning framework for conversational pathology named as CLOVER. CLOVER only trains a lightweight module and uses instruction tuning while freezing the parameters of the large language model. Instead of using costly GPT-4, we propose well-designed prompts on GPT-3.5 for building generation-based instructions, emphasizing the utility of pathological knowledge derived from the Internet source. To augment the use of instructions, we construct a high-quality set of template-based instructions in the context of digital pathology. From two benchmark datasets, our findings reveal the strength of hybrid-form instructions in the visual question-answer in pathology. Extensive results show the cost-effectiveness of CLOVER in answering both open-ended and closed-ended questions, where CLOVER outperforms strong baselines that possess 37 times more training parameters and use instruction data generated from GPT-4. Through the instruction tuning, CLOVER exhibits robustness of few-shot learning in the external clinical dataset. These findings demonstrate that cost-effective modeling of CLOVER could accelerate the adoption of rapid conversational applications in the landscape of digital pathology.

MedFMC: A Real-world Dataset and Benchmark For Foundation Model Adaptation in Medical Image Classification

Foundation models, often pre-trained with large-scale data, have achieved paramount success in jump-starting various vision and language applications. Recent advances further enable adapting foundation models in downstream tasks efficiently using only a few training samples, e.g., in-context learning. Yet, the application of such learning paradigms in medical image analysis remains scarce due to the shortage of publicly accessible data and benchmarks. In this paper, we aim at approaches adapting the foundation models for medical image classification and present a novel dataset and benchmark for the evaluation, i.e., examining the overall performance of accommodating the large-scale foundation models downstream on a set of diverse real-world clinical tasks. We collect five sets of medical imaging data from multiple institutes targeting a variety of real-world clinical tasks (22,349 images in total), i.e., thoracic diseases screening in X-rays, pathological lesion tissue screening, lesion detection in endoscopy images, neonatal jaundice evaluation, and diabetic retinopathy grading. Results of multiple baseline methods are demonstrated using the proposed dataset from both accuracy and cost-effective perspectives.