@article {69880,
	title = {DeepPD: Joint Phase and Object Estimation from Phase Diversity with Neural Calibration of a Deformable Mirror},
	journal = {arXiv},
	year = {2025},
	month = {2025 Apr 19},
	abstract = {<h4>Sample-induced aberrations and optical imperfections limit the resolution of fluorescence microscopy. Phase diversity is a powerful technique that leverages complementary phase information in sequentially acquired images with deliberately introduced aberrations--the phase diversities--to enable phase and object reconstruction and restore diffraction-limited resolution. These phase diversities are typically introduced into the optical path via a deformable mirror. Existing phase-diversity-based methods are limited to Zernike modes, require large numbers of diversity images, or depend on accurate mirror calibration--which are all suboptimal. We present DeepPD, a deep learning-based framework that combines neural representations of the object and wavefront with a learned model of the deformable mirror to jointly estimate both object and phase from only five images. DeepPD improves robustness and reconstruction quality over previous approaches, even under severe aberrations. We demonstrate its performance on calibration targets and biological samples, including immunolabeled myosin in fixed PtK2 cells.</h4>
},
	doi = {10.48550/arxiv.2504.14157},
	url = {https://doi.org/10.48550/arxiv.2504.14157},
	author = {Magdalena C. Schneider and Courtney Johnson and C{\'e}dric Allier and Larissa Heinrich and Diane Adjavon and Joren Husic and Patrick La Riviere and Stephan Saalfeld and Hari Shroff}
}
@article {69141,
	title = {Interactive simulation and visualization of point spread functions in single molecule imaging.},
	journal = {Optics Communications},
	year = {2024},
	month = {2024 Mar 20},
	abstract = {<p>The point spread function (PSF) is fundamental to any type of microscopy, most importantly so for single-molecule localization techniques, where the exact PSF shape is crucial for precise molecule localization at the nanoscale. Optical aberrations and fixed fluorophore dipoles often result in non-isotropic and distorted PSFs, impairing and biasing conventional fitting approaches. Further, PSF shapes are deliberately modified in PSF engineering approaches for providing improved sensitivity, e.g., for 3D localization or determination of dipole orientation. As this can lead to highly complex PSF shapes, a tool for visualizing expected PSFs would facilitate the interpretation of obtained data and the design of experimental approaches. To this end, we introduce a comprehensive and accessible computer application that allows for the simulation of realistic PSFs based on the full vectorial PSF model. Our tool incorporates a wide range of microscope and fluorophore parameters, including orientationally constrained fluorophores, as well as custom aberrations, transmission and phase masks, thus enabling an accurate representation of various imaging conditions. An additional feature is the simulation of crowded molecular environments with overlapping PSFs. Further, our app directly provides the Cram{\'e}r{\textendash}Rao bound for assessing the best achievable localization precision under given conditions. Finally, our software allows for the fitting of custom aberrations directly from experimental data, as well as the generation of a large dataset with randomized simulation parameters, effectively bridging the gap between simulated and experimental scenarios, and enhancing experimental design and result validation.</p>
},
	doi = {10.1016/j.optcom.2024.130463},
	url = {https://www.sciencedirect.com/science/article/pii/S0030401824002001?via\%3Dihub},
	author = {Magdalena C. Schneider and Fabian Hinterer and Alexander Jesacher and Gerhard J. Sch{\"u}tz}
}
