arXiv subjects

Mohamadreza Fazel

Publications and source records attributed to Mohamadreza Fazel.

4 recordsLinked to original sources

arXiv2023

Fluorescence Microscopy: a statistics-optics perspective

Fundamental properties of light unavoidably impose features on images collected using fluorescence microscopes. Modeling these features is ever more important in quantitatively interpreting microscopy images collected at scales on par or smaller than light's wavelength. Here we review the optics responsible for generating fluorescent images, fluorophore properties, microscopy modalities leveraging properties of both light and fluorophores, in addition to the necessarily probabilistic modeling tools imposed by the stochastic nature of light and measurement.

physics.optics↗

arXiv2021

Analysis of Super-resolution Single Molecule Localization Microscopy Data: a tutorial

The diffraction of light imposes a fundamental limit on the resolution of light microscopes. This limit can be circumvented by creating and exploiting independent behaviors of the sample at length scales below the diffraction limit. In super-resolution single molecule localization microscopy (SMLM), the independence arises from individual fluorescent labels stochastically switching between dark and fluorescent states, which in turn allows the pinpointing of fluorophores post experimentally using a sequence of acquired sparse image frames. Finally, the resulting list of fluorophore coordinates is utilized to produce high resolution images or to gain quantitative insight into the underlying biological structures. Therefore, image processing and post-processing are essential stages of SMLM. Here, we review the latest progress on SMLM data processing and post-processing.

physics.bio-ph↗

arXiv2015

Hessian matrix, specific heats, Nambu brackets, and thermodynamic geometry

As an extension to our earlier work \cite{Mirza2}, we employ the Nambu brackets to prove that the divergences of heat capacities correspond to their counterparts in thermodynamic geometry. We also obtain a simple representation for the conformal transformations that connect different thermodynamics metrics to each other. Using our bracket approach, we obtain interesting exact relations between the Hessian matrix with any number of parameters and specific heat capacities. Finally, we employ this approach to investigate some thermodynamic properties of the Meyers-Perry black holes with three spins.

gr-qc↗

arXiv2014

Black hole temperature: minimal coupling vs conformal coupling

In this article, we discuss the propagation of scalar fields in conformally transformed spacetimes with either minimal or conformal coupling. The conformally coupled equation of motion is transformed into a one-dimensional Schrödinger-like equation with an invariant potential under conformal transformation. In a second stage, we argue that calculations based on conformal coupling yield the same Hawking temperature as those based on minimal coupling. Finally, it is conjectured that the quasi normal modes of black holes are invariant under conformal transformation.

gr-qc↗