# PixCell: A generative foundation model for digital histopathology images

arXiv: https://arxiv.org/abs/2506.05127 · HTML: https://mlsanity.com/paper/2506.05127/

## Key facts

- Cited by 11 papers in the map (data through 14 Oct 2026).
- Builds on 61 of its 99 references that are in the map.
- First posted on arXiv 5 Jun 2025.

## Builds on (most cited first, 30 of 61)

- [Learning Transferable Visual Models From Natural Language Supervision](https://mlsanity.com/paper/2103.00020/) (2021)
- [Denoising Diffusion Probabilistic Models](https://mlsanity.com/paper/2006.11239/) (2020)
- [High-Resolution Image Synthesis with Latent Diffusion Models](https://mlsanity.com/paper/2112.10752/) (2021)
- [Denoising Diffusion Implicit Models](https://mlsanity.com/paper/2010.02502/) (2020)
- [Score-Based Generative Modeling through Stochastic Differential Equations](https://mlsanity.com/paper/2011.13456/) (2020)
- [Diffusion Models Beat GANs on Image Synthesis](https://mlsanity.com/paper/2105.05233/) (2021)
- [DINOv2: Learning Robust Visual Features without Supervision](https://mlsanity.com/paper/2304.07193/) (2023)
- [Emerging Properties in Self-Supervised Vision Transformers](https://mlsanity.com/paper/2104.14294/) (2021)
- [Scalable Diffusion Models with Transformers](https://mlsanity.com/paper/2212.09748/) (2022)
- [Classifier-Free Diffusion Guidance](https://mlsanity.com/paper/2207.12598/) (2022)
- [Flow Matching for Generative Modeling](https://mlsanity.com/paper/2210.02747/) (2022)
- [Adding Conditional Control to Text-to-Image Diffusion Models](https://mlsanity.com/paper/2302.05543/) (2023)
- [Rethinking the Inception Architecture for Computer Vision](https://mlsanity.com/paper/1512.00567/) (2015)
- [SDXL: Improving Latent Diffusion Models for High-Resolution Image Synthesis](https://mlsanity.com/paper/2307.01952/) (2023)
- [LAION-5B: An open large-scale dataset for training next generation image-text models](https://mlsanity.com/paper/2210.08402/) (2022)
- [Improved Denoising Diffusion Probabilistic Models](https://mlsanity.com/paper/2102.09672/) (2021)
- [Flow Straight and Fast: Learning to Generate and Transfer Data with Rectified Flow](https://mlsanity.com/paper/2209.03003/) (2022)
- [DPM-Solver: A Fast ODE Solver for Diffusion Probabilistic Model Sampling in Around 10 Steps](https://mlsanity.com/paper/2206.00927/) (2022)
- [iBOT: Image BERT Pre-Training with Online Tokenizer](https://mlsanity.com/paper/2111.07832/) (2021)
- [PixArt-α: Fast Training of Diffusion Transformer for Photorealistic Text-to-Image Synthesis](https://mlsanity.com/paper/2310.00426/) (2023)
- [Extracting Training Data from Diffusion Models](https://mlsanity.com/paper/2301.13188/) (2023)
- [MultiDiffusion: Fusing Diffusion Paths for Controlled Image Generation](https://mlsanity.com/paper/2302.08113/) (2023)
- [Dual-stream Multiple Instance Learning Network for Whole Slide Image Classification with Self-supervised Contrastive Learning](https://mlsanity.com/paper/2011.08939/) (2020)
- [Rotation Equivariant CNNs for Digital Pathology](https://mlsanity.com/paper/1806.03962/) (2018)
- [HoVer-Net: Simultaneous Segmentation and Classification of Nuclei in Multi-Tissue Histology Images](https://mlsanity.com/paper/1812.06499/) (2018)
- [PixArt-Sigma: Weak-to-Strong Training of Diffusion Transformer for 4K Text-to-Image Generation](https://mlsanity.com/paper/2403.04692/) (2024)
- [Synthetic Data from Diffusion Models Improves ImageNet Classification](https://mlsanity.com/paper/2304.08466/) (2023)
- [Repurposing Diffusion-Based Image Generators for Monocular Depth Estimation](https://mlsanity.com/paper/2312.02145/) (2023)
- [Effective Data Augmentation With Diffusion Models](https://mlsanity.com/paper/2302.07944/) (2023)
- [The Role of ImageNet Classes in Fr'echet Inception Distance](https://mlsanity.com/paper/2203.06026/) (2022)

## Built on by (most cited first, 11 of 11)

- [Beyond Pixel Simulation: Pathology Image Generation via Diagnostic Semantic Tokens and Prototype Control](https://mlsanity.com/paper/2512.21058/) (2025)
- [DiffusionQC: Artifact Detection in Histopathology via Diffusion Model](https://mlsanity.com/paper/2601.12233/) (2026)
- [CytoSyn: a Foundation Diffusion Model for Histopathology -- Tech Report](https://mlsanity.com/paper/2603.18089/) (2026)
- [A Generative Foundation Model for Multimodal Histopathology](https://mlsanity.com/paper/2604.03635/) (2026)
- [HistDiT: A Structure-Aware Latent Conditional Diffusion Model for High-Fidelity Virtual Staining in Histopathology](https://mlsanity.com/paper/2604.08305/) (2026)
- [Reliable Benchmarking of Artifact Detection in Computational Pathology: A Reproducibility and Uncertainty Analysis](https://mlsanity.com/paper/2608.30835/) (2026)
- [Layout-Guided Controllable Pathology Image Generation with In-Context Diffusion Transformers](https://mlsanity.com/paper/2603.13386/) (2026)
- [Central-to-Local Adaptive Generative Diffusion Framework for Improving Gene Expression Prediction in Data-Limited Spatial Transcriptomics](https://mlsanity.com/paper/2603.26827/) (2026)
- [STREAM: Stochastic Riemannian Flow Matching with Anisotropic Decoder for Digital Histopathology Image Generation](https://mlsanity.com/paper/2606.07036/) (2026)
- [Controllable Histopathology Image Synthesis with Training-free Structural Initialization and Textural Modulation](https://mlsanity.com/paper/2606.27935/) (2026)
- [The Effect of Tissue Detection on False Positives of Diffusion-Based Artifact Detection in Histopathology](https://mlsanity.com/paper/2609.40083/) (2026)

## Abstract (arXiv)

The digitization of histology slides has revolutionized pathology, providing massive datasets for cancer diagnosis and research. Self-supervised and vision-language models have been shown to effectively mine large pathology datasets to learn discriminative representations. On the other hand, there are unique problems in pathology, such as annotated data scarcity, privacy regulations in data sharing, and inherently generative tasks like virtual staining. Generative models, capable of synthesizing realistic and diverse images, present a compelling solution to address these problems through image synthesis. We introduce PixCell, the first generative foundation model for histopathology images. PixCell is a diffusion model trained on PanCan-30M, a large, diverse dataset derived from 69,184 H&E-stained whole slide images of various cancer types. We employ a progressive training strategy and a self-supervision-based conditioning that allows us to scale up training without any human-annotated data. By conditioning on real slides, the synthetic images capture the properties of the real data and can be used as data augmentation for small-scale datasets to boost classification performance. We prove the foundational versatility of PixCell by applying it to two generative downstream tasks: privacy-preserving synthetic data generation and virtual IHC staining. PixCell's high-fidelity conditional generation enables institutions to use their private data to synthesize highly realistic, site-specific surrogate images that can be shared in place of raw patient data. Furthermore, using datasets of roughly paired H&E-IHC tiles, we learn to translate PixCell's conditioning from H&E to multiple IHC stains, allowing the generation of IHC images from H&E inputs. Our trained models are publicly released to accelerate research in computational pathology.