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Dual-stream Multiple Instance Learning Network for Whole Slide Image Classification with Self-supervised Contrastive Learning
Open accessAbstract
We address the challenging problem of whole slide image (WSI) classification. WSIs have very high resolutions and usually lack localized annotations. WSI classification can be cast as a multiple instance learning (MIL) problem when only slide-level labels are available. We propose a MIL-based method for WSI classification and tumor detection that does not require localized annotations. Our method has three major components. First, we introduce a novel MIL aggregator that models the relations of the instances in a dual-stream architecture with trainable distance measurement. Second, since WSIs can produce large or unbalanced bags that hinder the training of MIL models, we propose to use self-supervised contrastive learning to extract good representations for MIL and alleviate the issue of prohibitive memory cost for large bags. Third, we adopt a pyramidal fusion mechanism for multiscale WSI features, and further improve the accuracy of classification and localization. Our model is evaluated on two representative WSI datasets. The classification accuracy of our model compares favorably to fully-supervised methods, with less than 2% accuracy gap across datasets. Our results also outperform all previous MIL-based methods. Additional benchmark results on standard MIL datasets further demonstrate the superior performance of our MIL aggregator on general MIL problems.
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“Instead of training an additional model on top of patch embeddings from scratch34,73–80, these whole-slide representation models can be pretrained to distill pathology-specific knowledge from large WSI collections, simplifying clinical endpoint prediction with their off-the-shelf application.”
From A multimodal whole-slide foundation model for pathology (2025) · cites this paper as [75]
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“The remaining studies explored multiple other tasks and many focused on classification of malignant disorders such as breast cancer56,61,88, skin cancer89, and lung cancer59.”
From Self-supervised learning for medical image classification: a systematic review and implementation guidelines (2023) · cites this paper as [59]
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Eastwood, M., Marc, S. T., Gao, X. W., Sailem, H., Offman, J., Karteris, E., Montero, Á., Jonigk, D. D., Cookson, W., Moffatt, M. F., et al. (2022) · Lecture notes in computer science · doi:10.1007/978-3-031-09342-5_25 · Cited by 4
Computationally efficient adaptive decompression for whole slide image processing
Li, Z., Li, B., Eliceiri, K. W., & Narayanan, V. (2022) · Biomedical Optics Express · doi:10.1364/boe.477515 · Cited by 4
Self-citationA Regional Multiple Instance Learning Network for Whole Slide Image Segmentation
Cai, H., Yi, W., Li, Y., Liao, W., & Song, J. (2022) · IEEE International Conference on Bioinformatics and Biomedicine (BIBM) · doi:10.1109/bibm55620.2022.9995017 · Cited by 4
Self-citationHuang, Z., Wessler, B., & Hughes, M. (2023) · Machine Learning in Health Care · doi:10.48550/arxiv.2306.00003 · Cited by 17
Using Multiple Instance Learning to Build Multimodal Representations
Wang, P., Wells, W. M., Berkowitz, S., Horng, S., & Golland, P. (2023) · Lecture notes in computer science · doi:10.1007/978-3-031-34048-2_35 · Cited by 4
Multiple Instance Learning with Trainable Soft Decision Tree Ensembles
Konstantinov, A. V., Utkin, L. V., & Muliukha, V. (2023) · Algorithms · doi:10.3390/a16080358 · Cited by 4
Enhancing PFI Prediction with GDS-MIL: A Graph-Based Dual Stream MIL Approach
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Li, X., Yang, B., Chen, T., Lv, S., Gao, Z., & Li, H. (2023) · International Conference on Communications, Computing and Artificial Intelligence (CCCAI) · doi:10.1109/cccai59026.2023.00017 · Cited by 4
Lee, J., Nam, H., Lee, K., & Hahn, S. (2024) · IEEE International Conference on Acoustics Speech and Signal Processing · doi:10.1109/icassp48485.2024.10448245 · Cited by 4
Sun, M., Zhang, J., Zhao, S., Li, X., & Zhuo, L. (2024) · Biomedical Signal Processing and Control · doi:10.1016/j.bspc.2024.107023 · Cited by 4
Jiao, M., Liu, H., Liu, J., Ouyang, H., Wang, X., Jiang, L., Yuan, H., & Qian, Y. (2022) · Lecture notes in computer science · doi:10.1007/978-3-031-16437-8_17 · Cited by 4
An AI based, open access screening tool for early diagnosis of Burkitt lymphoma
Nambiar, N., Rajesh, V., Nair, A., Nambiar, S., Nair, R., Uthamanthil, R., Lotodo, T. C., Mittal, S., & Kussick, S. J. (2024) · Frontiers in Medicine · doi:10.3389/fmed.2024.1345611 · Cited by 3
Pseudo-label attention-based multiple instance learning for whole slide image classification
He, J., Ping, W., Cai, J., Tang, D., Yao, S., & Liu, R. (2024) · Engineering Applications of Artificial Intelligence · doi:10.1016/j.engappai.2024.109908 · Cited by 3
Metadata
- Authors
- Li, B., Li, Y., & Eliceiri, K. W.
- Affiliations
- University of Wisconsin–Madison (US)
- Corresponding author
- Li, Yin
- Eliceiri, Kevin W.
- Venue
- 2021 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR)
- Publisher
- IEEE
- Published
- 2021-06
- Volume
- 2021
- Pages
- 14313-14323
- ISSN
- 1063-6919 (ISSN-L)
- PMC
- PMC8765709
- OpenAlex
- W3176719058
- Cited by
- 957
- References
- 60
- Citations by year
- 2026: 204 · 2025: 247 · 2024: 241 · 2023: 171 · 2022: 82 · 2021: 12
- FWCI
- 58.33
- Type
- conference paper
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Licence
- Locations
- IEEE Computer Society Conference on Computer Vision and Pattern Recognition/Proceedings - IEEE Computer Society Conference on Computer Vision and Pattern Recognition/Proceedings (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- arXiv (Cornell University) (submittedVersion)
- arXiv (Cornell University)
- Funders
- Semiconductor Research Corporation
- Wisconsin Alumni Research Foundation
- National Institutes of Health
- National Institute of General Medical Sciences (P41GM135019)
- Topics
- Physical Sciences › Computer Science › Artificial Intelligence › AI in cancer detection
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Radiomics and Machine Learning in Medical Imaging
- Physical Sciences › Computer Science › Artificial Intelligence › Domain Adaptation and Few-Shot Learning
- Keywords
- whole slide image classification, multiple instance learning, self-supervised contrastive learning, two-stream network, tumor detection, multi-scale features
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Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
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