Point-spread function engineering to reduce the impact of spherical aberration on 3D computational fluorescence microscopy imaging

Yuan, Shuai; Preza, Chrysanthe

doi:10.1364/oe.19.023298

Cited by 45 publications

(34 citation statements)

References 20 publications

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“…To quantify the difference between two images ( , , ) a x y z and ( , , ) b x y z we used a 3D normalized mean square error (NMSE) which is calculated according to the following equation [25] …”

Section: D Normalized Mean Square Error (Nmse 3d )mentioning

confidence: 99%

Image restoration for three-dimensional fluorescence microscopy using an orthonormal basis for efficient representation of depth-variant point-spread functions

Patwary

Preza

2015

Biomed. Opt. Express

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A depth-variant (DV) image restoration algorithm for wide field fluorescence microscopy, using an orthonormal basis decomposition of DV point-spread functions (PSFs), is investigated in this study. The efficient PSF representation is based on a previously developed principal component analysis (PCA), which is computationally intensive. We present an approach developed to reduce the number of DV PSFs required for the PCA computation, thereby making the PCA-based approach computationally tractable for thick samples. Restoration results from both synthetic and experimental images show consistency and that the proposed algorithm addresses efficiently depth-induced aberration using a small number of principal components. Comparison of the PCA-based algorithm with a previously-developed strata-based DV restoration algorithm demonstrates that the proposed method improves performance by 50% in terms of accuracy and simultaneously reduces the processing time by 64% using comparable computational resources.

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Section: D Normalized Mean Square Error (Nmse 3d )mentioning

confidence: 99%

Image restoration for three-dimensional fluorescence microscopy using an orthonormal basis for efficient representation of depth-variant point-spread functions

Patwary

Preza

2015

Biomed. Opt. Express

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“…2(c)] and are also higher in intensity, indicating that it experiences less SA. To quantify the deviation of the different theoretical PSFs from the experimental PSF, a normalized mean square error (NMSE) metric 35 was computed using the experimental PSF as a reference. The calculated NMSE values are 0.13 for the N-interface PSF and 0.41, 0.57, and 0.23 for the PSFs predicted by the existing model assuming specimen RI ¼ 1.46, RI ¼ 1.56, and RI ¼ 1.51, respectively.…”

Section: Evaluation Of the Theoretical N-interface Psf Model Using Exmentioning

confidence: 99%

“…3). In the five cases presented here, the specimen is comprised of To quantify the deviation of the different theoretical PSFs from a reference PSF, an NMSE metric 35 was computed. PSF comparison and discussion of the variability of the PSF with the RI change within the specimen is summarized in the next section.…”

Section: N-interface Psfs Computed For Different Sample Conditionsmentioning

confidence: 99%

Fluorescence microscopy point spread function model accounting for aberrations due to refractive index variability within a specimen

Ghosh

Preza

2015

J. Biomed. Opt

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Abstract. A three-dimensional (3-D) point spread function (PSF) model for wide-field fluorescence microscopy, suitable for imaging samples with variable refractive index (RI) in multilayered media, is presented. This PSF model is a key component for accurate 3-D image restoration of thick biological samples, such as lung tissue. Microscope-and specimen-derived parameters are combined with a rigorous vectorial formulation to obtain a new PSF model that accounts for additional aberrations due to specimen RI variability. Experimental evaluation and verification of the PSF model was accomplished using images from 175-nm fluorescent beads in a controlled test sample. Fundamental experimental validation of the advantage of using improved PSFs in depth-variant restoration was accomplished by restoring experimental data from beads (6 μm in diameter) mounted in a sample with RI variation. In the investigated study, improvement in restoration accuracy in the range of 18 to 35% was observed when PSFs from the proposed model were used over restoration using PSFs from an existing model. The new PSF model was further validated by showing that its prediction compares to an experimental PSF (determined from 175-nm beads located below a thick rat lung slice) with a 42% improved accuracy over the current PSF model prediction. © The Authors. Published by SPIE under a Creative Commons Attribution 3.0 Unported License. Distribution or reproduction of this work in whole or in part requires full attribution of the original publication, including its DOI.

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“…Hybrid imaging systems, in which a phase mask is placed in the pupil plane to make the modulation transfer function (MTF) or the point spread function (PSF) less sensitive to defocus, can be used in many applications, such as aberrations reduction [1,2], thermal imaging [3,4], iris recognition [5,6]. In a hybrid imaging system, the incident wavefront is intentionally coded with a phase mask and the optically blurred images will be deblurred and decoded by a digital processing.…”

Section: Introductionmentioning

confidence: 99%

An Advanced Logarithmic Phase Mask for Extending Depth of Field of Hybrid Optical Systems

Nhu¹,

Nhue²,

Hai³

2017

Comm. in Phys.

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Abstract. In this paper, an advanced logarithmic phase mask is proposed and its performance is investigated. The essential performance characteristics of phase masks are shown, including the defocused modulation transfer functions (MTF), integral area of the MTF, Hilbert space angle, non-axial Strehl ratio, and decoded images. The results have demonstrated that our phase mask is highly beneficial to extend the depth of field of hybrid optical systems. The advantages of the proposed phase mask in comparison to some other masks are also pointed out.

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Point-spread function engineering to reduce the impact of spherical aberration on 3D computational fluorescence microscopy imaging

Cited by 45 publications

References 20 publications

Image restoration for three-dimensional fluorescence microscopy using an orthonormal basis for efficient representation of depth-variant point-spread functions

Image restoration for three-dimensional fluorescence microscopy using an orthonormal basis for efficient representation of depth-variant point-spread functions

Fluorescence microscopy point spread function model accounting for aberrations due to refractive index variability within a specimen

An Advanced Logarithmic Phase Mask for Extending Depth of Field of Hybrid Optical Systems

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