Michael G. Somekh

Yong En Kok, Bowen Deng, Alexander Bentley et al.

Optical aberrations significantly degrade image quality in microscopy, particularly when imaging deeper into samples. These aberrations arise from distortions in the optical wavefront and can be mathematically represented using Zernike polynomials. Existing methods often address only mild aberrations on limited sample types and modalities, typically treating the problem as a black-box mapping without leveraging the underlying optical physics of wavefront distortions. We propose ZRNet, a physics-informed framework that jointly performs Zernike coefficient prediction and optical image Restoration. We contribute a Zernike Graph module that explicitly models physical relationships between Zernike polynomials based on their azimuthal degrees-ensuring that learned corrections align with fundamental optical principles. To further enforce physical consistency between image restoration and Zernike prediction, we introduce a Frequency-Aware Alignment (FAA) loss, which better aligns Zernike coefficient prediction and image features in the Fourier domain. Extensive experiments on CytoImageNet demonstrates that our approach achieves state-of-the-art performance in both image restoration and Zernike coefficient prediction across diverse microscopy modalities and biological samples with complex, large-amplitude aberrations. Code is available at https://github.com/janetkok/ZRNet.

Bowen Deng, Yihan Zhang, Andrew Parkes et al.

Estimation of the optical properties of scattering media such as tissue is important in diagnostics as well as in the development of techniques to image deeper. As light penetrates the sample scattering events occur that alter the propagation direction of the photons in a random manner leading degradation of image quality. The distribution of the scattered light does, however, give a measure of the optical properties such as the reduced scattering coefficient and the absorption coefficient. Unfortunately, inverting scattering patterns to recover the optical properties is not simple especially in the regime where the light is partially randomized. Machine learning has been proposed by several authors as a means of recovering these properties from either the back scattered or the transmitted light. In the present paper we train a general purpose convolutional neural network RESNET 50 with simulated data based on Monte Carlo simulations. We show that compared with previous work our approach gives comparable or better reconstruction accuracy with training on a much smaller dataset. Moreover, by training on multiple parameters such as the intensity distribution at multiple planes or the exit angle and spatial distribution one achieves improved performance compared to training on a single input such as the intensity distribution captured at the sample surface. While our approach gives good parameter reconstruction, we identify factors that limit accuracy of the recovered properties, particularly the absorption coefficient. In the light of these limitations, we suggest how the present approach may be enhanced for even better performance.

Yong En Kok, Alexander Bentley, Andrew Parkes et al.

Optical imaging quality can be severely degraded by system and sample induced aberrations. Existing adaptive optics systems typically rely on iterative search algorithm to correct for aberrations and improve images. This study demonstrates the application of convolutional neural networks to characterise the optical aberration by directly predicting the Zernike coefficients from two to three phase-diverse optical images. We evaluated our network on 600,000 simulated Point Spread Function (PSF) datasets randomly generated within the range of -1 to 1 radians using the first 25 Zernike coefficients. The results show that using only three phase-diverse images captured above, below and at the focal plane with an amplitude of 1 achieves a low RMSE of 0.10 radians on the simulated PSF dataset. Furthermore, this approach directly predicts Zernike modes simulated extended 2D samples, while maintaining a comparable RMSE of 0.15 radians. We demonstrate that this approach is effective using only a single prediction step, or can be iterated a small number of times. This simple and straightforward technique provides rapid and accurate method for predicting the aberration correction using three or less phase-diverse images, paving the way for evaluation on real-world dataset.