# A Comprehensive Survey of Foundation Models in Medicine

arXiv: https://arxiv.org/abs/2406.10729 · HTML: https://mlsanity.com/paper/2406.10729/

## Key facts

- Cited by 56 papers in the map (data through 14 Oct 2026).
- Builds on 249 of its 406 references that are in the map.
- First posted on arXiv 15 Jun 2024.

## Builds on (most cited first, 30 of 249)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [Deep Residual Learning for Image Recognition](https://mlsanity.com/paper/1512.03385/) (2015)
- [BERT: Pre-training of Deep Bidirectional Transformers for Language Understanding](https://mlsanity.com/paper/1810.04805/) (2018)
- [Learning Transferable Visual Models From Natural Language Supervision](https://mlsanity.com/paper/2103.00020/) (2021)
- [Language Models are Few-Shot Learners](https://mlsanity.com/paper/2005.14165/) (2020)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [Denoising Diffusion Probabilistic Models](https://mlsanity.com/paper/2006.11239/) (2020)
- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [High-Resolution Image Synthesis with Latent Diffusion Models](https://mlsanity.com/paper/2112.10752/) (2021)
- [GPT-4 Technical Report](https://mlsanity.com/paper/2303.08774/) (2023)
- [Training language models to follow instructions with human feedback](https://mlsanity.com/paper/2203.02155/) (2022)
- [Exploring the Limits of Transfer Learning with a Unified Text-to-Text Transformer](https://mlsanity.com/paper/1910.10683/) (2019)
- [LLaMA: Open and Efficient Foundation Language Models](https://mlsanity.com/paper/2302.13971/) (2023)
- [RoBERTa: A Robustly Optimized BERT Pretraining Approach](https://mlsanity.com/paper/1907.11692/) (2019)
- [Llama 2: Open Foundation and Fine-Tuned Chat Models](https://mlsanity.com/paper/2307.09288/) (2023)
- [Swin Transformer: Hierarchical Vision Transformer using Shifted Windows](https://mlsanity.com/paper/2103.14030/) (2021)
- [A Simple Framework for Contrastive Learning of Visual Representations](https://mlsanity.com/paper/2002.05709/) (2020)
- [Distilling the Knowledge in a Neural Network](https://mlsanity.com/paper/1503.02531/) (2015)
- [Diffusion Models Beat GANs on Image Synthesis](https://mlsanity.com/paper/2105.05233/) (2021)
- [Segment Anything](https://mlsanity.com/paper/2304.02643/) (2023)
- [Visual Instruction Tuning](https://mlsanity.com/paper/2304.08485/) (2023)
- [Representation Learning with Contrastive Predictive Coding](https://mlsanity.com/paper/1807.03748/) (2018)
- [Scaling Laws for Neural Language Models](https://mlsanity.com/paper/2001.08361/) (2020)
- [Hierarchical Text-Conditional Image Generation with CLIP Latents](https://mlsanity.com/paper/2204.06125/) (2022)
- [BLIP-2: Bootstrapping Language-Image Pre-training with Frozen Image Encoders and Large Language Models](https://mlsanity.com/paper/2301.12597/) (2023)
- [BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension](https://mlsanity.com/paper/1910.13461/) (2019)
- [PaLM: Scaling Language Modeling with Pathways](https://mlsanity.com/paper/2204.02311/) (2022)
- [RoFormer: Enhanced Transformer with Rotary Position Embedding](https://mlsanity.com/paper/2104.09864/) (2021)
- [Training data-efficient image transformers & distillation through attention](https://mlsanity.com/paper/2012.12877/) (2020)
- [Efficient Estimation of Word Representations in Vector Space](https://mlsanity.com/paper/1301.3781/) (2013)

## Built on by (most cited first, 30 of 56)

- [MedSAM2: Segment Anything in 3D Medical Images and Videos](https://mlsanity.com/paper/2504.03600/) (2025)
- [VLRMBench: A Comprehensive and Challenging Benchmark for Vision-Language Reward Models](https://mlsanity.com/paper/2503.07478/) (2025)
- [Benchmarking Foundation Models for Zero-Shot Biometric Tasks](https://mlsanity.com/paper/2505.24214/) (2025)
- [Representation Potentials of Foundation Models for Multimodal Alignment: A Survey](https://mlsanity.com/paper/2510.05184/) (2025)
- [On the Robustness of Medical Vision-Language Models: Are they Truly Generalizable?](https://mlsanity.com/paper/2505.15425/) (2025)
- [Vision Foundation Models in Medical Image Analysis: Advances and Challenges](https://mlsanity.com/paper/2502.14584/) (2025)
- [Surgical Scene Understanding in the Era of Foundation AI Models: A Comprehensive Review](https://mlsanity.com/paper/2502.14886/) (2025)
- [Med-GLIP: Advancing Medical Language-Image Pre-training with Large-scale Grounded Dataset](https://mlsanity.com/paper/2508.10528/) (2025)
- [Prompt to Polyp: Medical Text-Conditioned Image Synthesis with Diffusion Models](https://mlsanity.com/paper/2505.05573/) (2025)
- [The Road to Generalizable Neuro-Symbolic Learning Should be Paved with Foundation Models](https://mlsanity.com/paper/2505.24874/) (2025)
- [Benchmarking Foundation Models and Parameter-Efficient Fine-Tuning for Prognosis Prediction in Medical Imaging](https://mlsanity.com/paper/2506.18434/) (2025)
- [Retrieval-aligned Tabular Foundation Models Enable Robust Clinical Risk Prediction in Electronic Health Records Under Real-world Constraints](https://mlsanity.com/paper/2604.01841/) (2026)
- [MARCH: Multi-Agent Radiology Clinical Hierarchy for CT Report Generation](https://mlsanity.com/paper/2604.16175/) (2026)
- [Medical world models in healthcare: foundations, applications, and challenges for trustworthy clinical translation](https://mlsanity.com/paper/2607.25242/) (2026)
- [Impact of Clinical Image Quality on Efficient Foundation Model Finetuning](https://mlsanity.com/paper/2508.11864/) (2025)
- [SingLEM: Single-Channel Large EEG Model](https://mlsanity.com/paper/2509.17920/) (2025)
- [Adaptation of Foundation Models for Medical Image Analysis: Strategies, Challenges, and Future Directions](https://mlsanity.com/paper/2511.01284/) (2025)
- [Causal Data Augmentation for Robust Fine-Tuning of Tabular Foundation Models](https://mlsanity.com/paper/2601.04110/) (2026)
- [Generalist Models in Medical Image Segmentation: A Survey and Performance Comparison with Task-Specific Approaches](https://mlsanity.com/paper/2506.10825/) (2025)
- [Benchmarking Foundation Models for Mitotic Figure Classification](https://mlsanity.com/paper/2508.04441/) (2025)
- [A data- and compute-efficient chest X-ray foundation model beyond aggressive scaling](https://mlsanity.com/paper/2602.22843/) (2026)
- [GenMed: A Pairwise Generative Reformulation of Medical Diagnostic Tasks](https://mlsanity.com/paper/2605.10645/) (2026)
- [HistoEncoder: a digital pathology foundation model for prostate cancer](https://mlsanity.com/paper/2411.11458/) (2024)
- [SAM2-UNeXT: An Improved High-Resolution Baseline for Adapting Foundation Models to Downstream Segmentation Tasks](https://mlsanity.com/paper/2508.03566/) (2025)
- [FoundBioNet: A Foundation-Based Model for IDH Genotyping of Glioma from Multi-Parametric MRI](https://mlsanity.com/paper/2508.06756/) (2025)
- [Machine Learning for Medicine Must Be Interpretable, Shareable, Reproducible and Accountable by Design](https://mlsanity.com/paper/2508.16097/) (2025)
- [Breaking Semantic Hegemony: Decoupling Principal and Residual Subspaces for Generalized OOD Detection](https://mlsanity.com/paper/2602.05360/) (2026)
- [MeFEm: Medical Face Embedding model](https://mlsanity.com/paper/2602.14672/) (2026)
- [Seeing Like Radiologists: Context- and Gaze-Guided Vision-Language Pretraining for Chest X-rays](https://mlsanity.com/paper/2603.26049/) (2026)
- [Foundation Model for Cardiac Time Series via Masked Latent Attention](https://mlsanity.com/paper/2603.26475/) (2026)

## Abstract (arXiv)

Foundation models (FMs) are large-scale deep learning models trained on massive datasets, often using self-supervised learning techniques. These models serve as a versatile base for a wide range of downstream tasks, including those in medicine and healthcare. FMs have demonstrated remarkable success across multiple healthcare domains. However, existing surveys in this field do not comprehensively cover all areas where FMs have made significant strides. In this survey, we present a comprehensive review of FMs in medicine, focusing on their evolution, learning strategies, flagship models, applications, and associated challenges. We examine how prominent FMs, such as the BERT and GPT families, are transforming various aspects of healthcare, including clinical large language models, medical image analysis, and omics research. Additionally, we provide a detailed taxonomy of FM-enabled healthcare applications, spanning clinical natural language processing, medical computer vision, graph learning, and other biology- and omics- related tasks. Despite the transformative potentials of FMs, they also pose unique challenges. This survey delves into these challenges and highlights open research questions and lessons learned to guide researchers and practitioners. Our goal is to provide valuable insights into the capabilities of FMs in health, facilitating responsible deployment and mitigating associated risks.