Extended Data Fig. 9. 3D eSRRF on a simulated woodpile structure dataset at different emitter densities.

a A woodpile structure with filaments along the x- and y-axis with varying axial distances ∆z served as a ground truth 3D architecture. b From a simulated fluorescence imaging stacks at nine focal planes based on the ground truth architecture (white lines) a 3D view as directly observed in a MFM can be rendered. c 3D eSRRF processing of the simulated datasets allows to enhance the lateral and axial resolution. d Representative image frames with a width of 5 µm of simulated datasets generated at five different emitter densities ranging over two orders of magnitude from an average next neighbor distance d_NN of 469 nm to 5 nm. e-h Axial profiles of filaments crossing at a distance ∆z of 350 nm (e), 400 nm (f), 500 nm (g) and 600 nm (h) for a sum of all simulated images (black dashed line), a deconvolved 3D reconstruction (black solid line) or eSRRF reconstructions of image stacks with very low (red), low (orange), medium (yellow), high (cyan) and very high (green) emitter densities. Scale bar 500 nm.