Synthetic-to-Real Transfer Learning for Chromatin-Sensitive PWS Microscopy
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arXiv
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| Format: | Preprint |
| Publié: |
2025
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| _version_ | 1866911231306104832 |
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| author | Arafat, Jahidul Poudel, Sanjaya |
| author_facet | Arafat, Jahidul Poudel, Sanjaya |
| contents | Chromatin sensitive partial wave spectroscopic (csPWS) microscopy enables label free detection of nanoscale chromatin packing alterations that occur before visible cellular transformation. However, manual nuclear segmentation limits population scale analysis needed for biomarker discovery in early cancer detection. The lack of annotated csPWS imaging data prevents direct use of standard deep learning methods. We present CFU Net, a hierarchical segmentation architecture trained with a three stage curriculum on synthetic multimodal data. CFU Net achieves near perfect performance on held out synthetic test data that represent diverse spectroscopic imaging conditions without manual annotations (Dice 0.9879, IoU 0.9895). Our approach uses physics based rendering that incorporates empirically supported chromatin packing statistics, Mie scattering models, and modality specific noise, combined with a curriculum that progresses from adversarial RGB pretraining to spectroscopic fine tuning and histology validation. CFU Net integrates five architectural elements (ConvNeXt backbone, Feature Pyramid Network, UNet plus plus dense connections, dual attention, and deep supervision) that together improve Dice over a baseline UNet by 8.3 percent. We demonstrate deployment ready INT8 quantization with 74.9 percent compression and 0.15 second inference, giving a 240 times throughput gain over manual analysis. Applied to more than ten thousand automatically segmented nuclei from synthetic test data, the pipeline extracts chromatin biomarkers that distinguish normal from pre cancerous tissue with large effect sizes (Cohens d between 1.31 and 2.98), reaching 94 percent classification accuracy. This work provides a general framework for synthetic to real transfer learning in specialized microscopy and open resources for community validation on clinical specimens. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2510_22239 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | Synthetic-to-Real Transfer Learning for Chromatin-Sensitive PWS Microscopy Arafat, Jahidul Poudel, Sanjaya Image and Video Processing Machine Learning Quantitative Methods 68T45, 92C55 I.4.6; I.2.10; I.5.4 Chromatin sensitive partial wave spectroscopic (csPWS) microscopy enables label free detection of nanoscale chromatin packing alterations that occur before visible cellular transformation. However, manual nuclear segmentation limits population scale analysis needed for biomarker discovery in early cancer detection. The lack of annotated csPWS imaging data prevents direct use of standard deep learning methods. We present CFU Net, a hierarchical segmentation architecture trained with a three stage curriculum on synthetic multimodal data. CFU Net achieves near perfect performance on held out synthetic test data that represent diverse spectroscopic imaging conditions without manual annotations (Dice 0.9879, IoU 0.9895). Our approach uses physics based rendering that incorporates empirically supported chromatin packing statistics, Mie scattering models, and modality specific noise, combined with a curriculum that progresses from adversarial RGB pretraining to spectroscopic fine tuning and histology validation. CFU Net integrates five architectural elements (ConvNeXt backbone, Feature Pyramid Network, UNet plus plus dense connections, dual attention, and deep supervision) that together improve Dice over a baseline UNet by 8.3 percent. We demonstrate deployment ready INT8 quantization with 74.9 percent compression and 0.15 second inference, giving a 240 times throughput gain over manual analysis. Applied to more than ten thousand automatically segmented nuclei from synthetic test data, the pipeline extracts chromatin biomarkers that distinguish normal from pre cancerous tissue with large effect sizes (Cohens d between 1.31 and 2.98), reaching 94 percent classification accuracy. This work provides a general framework for synthetic to real transfer learning in specialized microscopy and open resources for community validation on clinical specimens. |
| title | Synthetic-to-Real Transfer Learning for Chromatin-Sensitive PWS Microscopy |
| topic | Image and Video Processing Machine Learning Quantitative Methods 68T45, 92C55 I.4.6; I.2.10; I.5.4 |
| url | https://arxiv.org/abs/2510.22239 |