Phase analysis simulating the Takeda method to obtain a 3D profile of SARS-CoV-2 cells

Abstract

In this work, we propose a morphologic analysis by means of the construction of 3D models of the SARS-CoV-2 VP (viral particles) with algorithms in Python and Matlab based on the processing of frames. To this aim, we simulate the Takeda method to induce periodicity and apply the Fourier transform to obtain the phase of objects under analysis. To this aim, we analyze several research works focused on infected tissues by SARS-CoV-2 virus culture cells, highlighting the obtained medical images of the virus from microscopy and tomography. We optimize the results by performing image processing (segmentation and periodic noise removal) in order to obtain an accurate ROI (Region of Interest) segmentation containing only information on SARS-CoV-2 cells. We apply our algorithm to these images (3D tomographic medical images) to simulate the Takeda method (which also filters the image), considering the periodicity induced by us in the image to carry out a phase unwrapping process. Finally, we use the image phase to focus on the body, center (RNA, Protein M-N), and spikes (Protein S) of the SARS-CoV-2 cells to identify them as characteristic elements of the SARS-CoV-2 virion morphology to build a 3D model based only in the metadata of clinical studies on cell cultures. The latter results in the construction of a mathematical, physical, biological, and numerical model of the SARS-CoV-2 virion, a tool with volumes, or 3D non-speculative or animated models, based only on medical images (3D tomography) in clinical tests, faithful to the virus.