TY - CONF AU - Shah, Zafran Hussain AU - Muller, Marcel AU - Hammer, Barbara AU - Huser, Thomas AU - Schenck, Wolfram ID - 2945 T2 - 2022 International Joint Conference on Neural Networks (IJCNN) TI - Impact of different loss functions on denoising of microscopic images ER - TY - JOUR AU - Shah, Zafran Hussain AU - Müller, Marcel AU - Wang, Tung-Cheng AU - Scheidig, Philip Maurice AU - Schneider, Axel AU - Schüttpelz, Mark AU - Huser, Thomas AU - Schenck, Wolfram ID - 1201 IS - 5 JF - Photonics Research TI - Deep-learning based denoising and reconstruction of super-resolution structured illumination microscopy images VL - 9 ER - TY - GEN AB - Abstract - Super-resolution structured illumination microscopy (SR-SIM) provides an up to two-fold enhanced spatial resolution of fluorescently labeled samples. The reconstruction of high quality SR-SIM images critically depends on patterned illumination with high modulation contrast. Noisy raw image data, e.g. as a result of low excitation power or low exposure times, result in reconstruction artifacts. Here, we demonstrate deep-learning based SR-SIM image denoising that results in high quality reconstructed images. A residual encoding-decoding convolution neural network (RED-Net) was used to successfully denoise computationally reconstructed noisy SR-SIM images. We also demonstrate the entirely deep-learning based denoising and reconstruction of raw SIM images into high-resolution SR-SIM images. Both image reconstruction methods prove to be very robust against image reconstruction artifacts and generalize very well over various noise levels. The combination of computational reconstruction and subsequent denoising via RED-Net shows very robust performance during inference after training even if the microscope settings change. AU - Shah, Zafran Hussain AU - Müller, Marcel AU - Wang, Tung-Cheng AU - Scheidig, Philip Maurice AU - Schneider, Axel AU - Schüttpelz, Mark AU - Huser, Thomas AU - Schenck, Wolfram ID - 2778 TI - Deep-learning based denoising and reconstruction of super-resolution structured illumination microscopy images ER -