@article {70450,
	title = {Self-supervised Internal Learning Enhances Isotropic Resolution for Three-dimensional Fluorescence Microscopy},
	journal = {bioRxiv},
	year = {2026},
	month = {2026 Jun 08},
	abstract = {<p>Three dimensional fluorescence microscopy often exhibits anisotropic resolution because axial information is poorly sampled and more blurred than lateral information, which complicates quantitative interpretation of fine 3D structures. Although optical remedies and computational restoration have been explored, many approaches require demanding system calibration or rely on accurate PSF models and assumptions that are difficult to satisfy across all samples and modalities. Here we present DeepIso, a self-supervised isotropy restoration framework that couples supervised pretraining with an internal-learning inference stage to estimate degradation directly from the measured volume. Without explicit PSF specification or enforced lateral-axial structural equivalence, DeepIso recovers axial frequency content and improves the continuity of elongated structures while retaining fine features, with superior performance over existing computational approaches in terms of both visual inspection and quantitative metrics. The method is validated on synthetic benchmarks and experimental datasets, demonstrating isotropy enhancement across confocal, light-sheet, and 3D structured illumination microscopy, thereby supporting downstream volumetric analysis including segmentation and tracking.</p>
},
	doi = {10.64898/2026.06.04.717237},
	url = {https://www.biorxiv.org/content/early/2026/06/08/2026.06.04.717237},
	author = {Wei, Mingzhe and Xu, Pengcheng and Liu, Junyu and Li, Xuesong and Feng, Xuhui and Zhu, Jun and Dong, Renwei and Ran, Hengjia and Zhu, Wentao and Han, Yubing and Li, Yue and Guo, Min and Liu, Huafeng}
}
@article {69792,
	title = {Volumetric imaging of the 3D orientation of cellular structures with a polarized fluorescence light-sheet microscope.},
	journal = {Proc Natl Acad Sci },
	volume = {122},
	year = {2025},
	month = {2025 Feb 25},
	pages = {e2406679122},
	abstract = {<p>Polarized fluorescence microscopy is a valuable tool for measuring molecular orientations in biological samples, but techniques for recovering three-dimensional orientations and positions of fluorescent ensembles are limited. We report a polarized dual-view light-sheet system for determining the diffraction-limited three-dimensional distribution of the orientations and positions of ensembles of fluorescent dipoles that label biological structures. We share a set of visualization, histogram, and profiling tools for interpreting these positions and orientations. We model the distributions based on the polarization-dependent efficiency of excitation and detection of emitted fluorescence, using coarse-grained representations we call orientation distribution functions (ODFs). We apply ODFs to create physics-informed models of image formation with spatio-angular point-spread and transfer functions. We use theory and experiment to conclude that light-sheet tilting is a necessary part of our design for recovering all three-dimensional orientations. We use our system to extend known two-dimensional results to three dimensions in FM1-43-labeled giant unilamellar vesicles, fast-scarlet-labeled cellulose in xylem cells, and phalloidin-labeled actin in U2OS cells. Additionally, we observe phalloidin-labeled actin in mouse fibroblasts grown on grids of labeled nanowires and identify correlations between local actin alignment and global cell-scale orientation, indicating cellular coordination across length scales.</p>
},
	keywords = {Actins, Animals, Humans, Imaging, Three-Dimensional, Mice, Microscopy, Fluorescence, Microscopy, Polarization, Xylem},
	issn = {1091-6490},
	doi = {10.1073/pnas.2406679122},
	author = {Chandler, Talon and Guo, Min and Su, Yijun and Chen, Jiji and Wu, Yicong and Liu, Junyu and Agashe, Atharva and Fischer, Robert S and Mehta, Shalin B and Kumar, Abhishek and Baskin, Tobias I and Jaumouill{\'e}, Valentin and Liu, Huafeng and Swaminathan, Vinay and Nain, Amrinder S and Oldenbourg, Rudolf and La Riviere, Patrick J and Shroff, Hari}
}
