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| Main Authors: | , , |
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| Format: | Preprint |
| Published: |
2026
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| Subjects: | |
| Online Access: | https://arxiv.org/abs/2606.00928 |
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| _version_ | 1866911736120999936 |
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| author | Mohammad, Sakib Ritu, Jarin Hossain, Md Sakhawat |
| author_facet | Mohammad, Sakib Ritu, Jarin Hossain, Md Sakhawat |
| contents | Multiplexed fluorescence microscopy improves tissue segmentation by providing complementary channels including nuclear (DAPI) and membrane (E-cadherin), that together encode richer spatial context than single-channel imaging alone. However, multiplexed models require all channels at inference, limiting deployment where only a subset is available. This work proposes a cross-modal knowledge distillation framework that transfers semantic information from a frozen foundation model teacher processing multiplexed input to a lightweight student operating on the nuclear channel only. The distillation objective combines MSE-based probability matching, boundary-aware supervision, and learnable uncertainty weighting. SAM ViT-H and CellSAM are evaluated as teachers across four U-Net students: Swin-Tiny (27M), ResNet18 (11M), EfficientNet-B0 (5.3M), and MobileNetV3 (1.5M), on TissueNet and BBBC038. On TissueNet, the SAM-distilled Swin-Tiny student achieves Dice 78.36 (plus or minus 1.44), a 13.05-point improvement over the no-KD baseline (65.31 plus or minus 1.35) and 87.9% recovery of teacher oracle performance (89.12 plus or minus 1.21) at a 23x parameter reduction. KD consistently improves all four students by approximately 12 Dice points, confirming architecture-agnostic distillation. SAM ViT-H outperforms CellSAM as teacher across all settings. Cross-dataset evaluation on BBBC038 shows consistent gains without teacher retraining. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2606_00928 |
| institution | arXiv |
| publishDate | 2026 |
| record_format | arxiv |
| spellingShingle | Single-Channel Tissue Segmentation via Cross-Modal Distillation from Foundation Models Mohammad, Sakib Ritu, Jarin Hossain, Md Sakhawat Computer Vision and Pattern Recognition Machine Learning Multiplexed fluorescence microscopy improves tissue segmentation by providing complementary channels including nuclear (DAPI) and membrane (E-cadherin), that together encode richer spatial context than single-channel imaging alone. However, multiplexed models require all channels at inference, limiting deployment where only a subset is available. This work proposes a cross-modal knowledge distillation framework that transfers semantic information from a frozen foundation model teacher processing multiplexed input to a lightweight student operating on the nuclear channel only. The distillation objective combines MSE-based probability matching, boundary-aware supervision, and learnable uncertainty weighting. SAM ViT-H and CellSAM are evaluated as teachers across four U-Net students: Swin-Tiny (27M), ResNet18 (11M), EfficientNet-B0 (5.3M), and MobileNetV3 (1.5M), on TissueNet and BBBC038. On TissueNet, the SAM-distilled Swin-Tiny student achieves Dice 78.36 (plus or minus 1.44), a 13.05-point improvement over the no-KD baseline (65.31 plus or minus 1.35) and 87.9% recovery of teacher oracle performance (89.12 plus or minus 1.21) at a 23x parameter reduction. KD consistently improves all four students by approximately 12 Dice points, confirming architecture-agnostic distillation. SAM ViT-H outperforms CellSAM as teacher across all settings. Cross-dataset evaluation on BBBC038 shows consistent gains without teacher retraining. |
| title | Single-Channel Tissue Segmentation via Cross-Modal Distillation from Foundation Models |
| topic | Computer Vision and Pattern Recognition Machine Learning |
| url | https://arxiv.org/abs/2606.00928 |