# Large-scale pretraining on pathological images for fine-tuning of small pathological benchmarks

arXiv: https://arxiv.org/abs/2303.15693 · HTML: https://mlsanity.com/paper/2303.15693/

## Key facts

- Cited by 7 papers in the map (data through 14 Oct 2026).
- Builds on 31 of its 45 references that are in the map.
- First posted on arXiv 28 Mar 2023.

## Builds on (most cited first, 30 of 31)

- [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)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [Very Deep Convolutional Networks for Large-Scale Image Recognition](https://mlsanity.com/paper/1409.1556/) (2014)
- [A Simple Framework for Contrastive Learning of Visual Representations](https://mlsanity.com/paper/2002.05709/) (2020)
- [ImageNet Large Scale Visual Recognition Challenge](https://mlsanity.com/paper/1409.0575/) (2014)
- [Momentum Contrast for Unsupervised Visual Representation Learning](https://mlsanity.com/paper/1911.05722/) (2019)
- [Batch Normalization: Accelerating Deep Network Training by Reducing Internal Covariate Shift](https://mlsanity.com/paper/1502.03167/) (2015)
- [Emerging Properties in Self-Supervised Vision Transformers](https://mlsanity.com/paper/2104.14294/) (2021)
- [EfficientNet: Rethinking Model Scaling for Convolutional Neural Networks](https://mlsanity.com/paper/1905.11946/) (2019)
- [Rethinking the Inception Architecture for Computer Vision](https://mlsanity.com/paper/1512.00567/) (2015)
- [Fully Convolutional Networks for Semantic Segmentation](https://mlsanity.com/paper/1411.4038/) (2014)
- [Bootstrap your own latent: A new approach to self-supervised Learning](https://mlsanity.com/paper/2006.07733/) (2020)
- [Flamingo: a Visual Language Model for Few-Shot Learning](https://mlsanity.com/paper/2204.14198/) (2022)
- [Rethinking Atrous Convolution for Semantic Image Segmentation](https://mlsanity.com/paper/1706.05587/) (2017)
- [FixMatch: Simplifying Semi-Supervised Learning with Consistency and Confidence](https://mlsanity.com/paper/2001.07685/) (2020)
- [Identity Mappings in Deep Residual Networks](https://mlsanity.com/paper/1603.05027/) (2016)
- [An Empirical Study of Training Self-Supervised Vision Transformers](https://mlsanity.com/paper/2104.02057/) (2021)
- [Group Normalization](https://mlsanity.com/paper/1803.08494/) (2018)
- [Accurate, Large Minibatch SGD: Training ImageNet in 1 Hour](https://mlsanity.com/paper/1706.02677/) (2017)
- [Big Self-Supervised Models are Strong Semi-Supervised Learners](https://mlsanity.com/paper/2006.10029/) (2020)
- [Big Transfer (BiT): General Visual Representation Learning](https://mlsanity.com/paper/1912.11370/) (2019)
- [A Large-scale Study of Representation Learning with the Visual Task Adaptation Benchmark](https://mlsanity.com/paper/1910.04867/) (2019)
- [Rotation Equivariant CNNs for Digital Pathology](https://mlsanity.com/paper/1806.03962/) (2018)
- [Scaling Vision Transformers to Gigapixel Images via Hierarchical Self-Supervised Learning](https://mlsanity.com/paper/2206.02647/) (2022)
- [Deep Learning-based Computational Pathology Predicts Origins for Cancers of Unknown Primary](https://mlsanity.com/paper/2006.13932/) (2020)
- [Detecting Cancer Metastases on Gigapixel Pathology Images](https://mlsanity.com/paper/1703.02442/) (2017)
- [Robust and Efficient Medical Imaging with Self-Supervision](https://mlsanity.com/paper/2205.09723/) (2022)
- [A comparative study between vision transformers and CNNs in digital pathology](https://mlsanity.com/paper/2206.00389/) (2022)

## Built on by (most cited first, 7 of 7)

- [MedTrinity-25M: A Large-scale Multimodal Dataset with Multigranular Annotations for Medicine](https://mlsanity.com/paper/2408.02900/) (2024)
- [MedMO: Grounding and Understanding Multimodal Large Language Model for Medical Images](https://mlsanity.com/paper/2602.06965/) (2026)
- [PathoDuet: Foundation Models for Pathological Slide Analysis of H&E and IHC Stains](https://mlsanity.com/paper/2312.09894/) (2023)
- [UniBiomed: A Universal Foundation Model for Grounded Biomedical Image Interpretation](https://mlsanity.com/paper/2504.21336/) (2025)
- [Pathryoshka: Compressing Pathology Foundation Models via Multi-Teacher Knowledge Distillation with Nested Embeddings](https://mlsanity.com/paper/2511.23204/) (2025)
- [Fair Foundation Models for Medical Image Analysis: Challenges and Perspectives](https://mlsanity.com/paper/2502.16841/) (2025)
- [Enhancing Transformer-Based Segmentation for Breast Cancer Diagnosis using Auto-Augmentation and Search Optimisation Techniques](https://mlsanity.com/paper/2311.11065/) (2023)

## Abstract (arXiv)

Pretraining a deep learning model on large image datasets is a standard step before fine-tuning the model on small targeted datasets. The large dataset is usually general images (e.g. imagenet2012) while the small dataset can be specialized datasets that have different distributions from the large dataset. However, this 'large-to-small' strategy is not well-validated when the large dataset is specialized and has a similar distribution to small datasets. We newly compiled three hematoxylin and eosin-stained image datasets, one large (PTCGA200) and two magnification-adjusted small datasets (PCam200 and segPANDA200). Major deep learning models were trained with supervised and self-supervised learning methods and fine-tuned on the small datasets for tumor classification and tissue segmentation benchmarks. ResNet50 pretrained with MoCov2, SimCLR, and BYOL on PTCGA200 was better than imagenet2012 pretraining when fine-tuned on PTCGA200 (accuracy of 83.94%, 86.41%, 84.91%, and 82.72%, respectively). ResNet50 pre-trained on PTCGA200 with MoCov2 exceeded the COCOtrain2017-pretrained baseline and was the best in ResNet50 for the tissue segmentation benchmark (mIoU of 63.53% and 63.22%). We found re-training imagenet-pretrained models (ResNet50, BiT-M-R50x1, and ViT-S/16) on PTCGA200 improved downstream benchmarks.