Optical tomography measurements and reconstructions of a multiple-scattering 3d-printed microphantom

This dataset contains 2 sets of measurements of a 3d-printed microphantom, carried out with optical diffraction tomography system at Warsaw University of Technology. The measurements are conducted for 2 different wavelengths: 633nm and 835nm. Also, tomographic reconstructions of these datasets are shown. The reconstructions were computed with 3 algorithms: GPSC [1], MSBP-I [2] and MSBP-E [3]. Additionally, model of the 3D-printed microphantom is given.

All files are *.mat files.

In the reconstruction files there are 4 variables:

REC - reconstruction matrix with information about 3D refractive index values in the microphantom

dx - sample size in the reconstruction in x-y direction

dz - sample size in the reconstruction in z direction (if not given, dz=dx)

niter - number of iterations that were computed to generate the reconstruction

The variables in the sinogram files are:

dx - sample size in tomographic projections

lambda - wavelength

M - magnification in the optical system

n_immersion - refractive index of the immersion medium

NA - numerical aperture of the optical system

rayXY - x-y coordinates of vectors representing illumination directions from which tomographic projections were acquired

SINOamp - amplitude distribution of tomographic projections

SINOph - phase distributions of tomographic projections

The variables in the phantom model files are:

dx - sample size

n_immersion - refractive index of simulated immersion

n_phantom - refractive index of the phantom model

[1] W. Krauze, “Optical diffraction tomography with finite object support for the minimization of missing cone artifacts,”277
Biomed. optics express 11, 1919–1926 (2020)
[2] S. Chowdhury, M. Chen, R. Eckert, D. Ren, F. Wu, N. Repina, and L. Waller, “High-resolution 3D refractive index292
microscopy of multiple-scattering samples from intensity images,” Optica 6, 1211 (2019).
[3] U. S. Kamilov, I. N. Papadopoulos, M. H. Shoreh, A. Goy, C. Vonesch, M. Unser, and D. Psaltis, “Learning approach288
to optical tomography,” Optica 2, 517 (2015).