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Journal of Biomedical Optics

Stripe artifact elimination based on nonsubsampled contourlet transform for light sheet fluorescence microscopy
Author(s): Xiao Liang; Yali Zang; Di Dong; Liwen Zhang; Mengjie Fang; Xin Yang; Alicia Arranz; Jorge Ripoll; Hui Hui; Jie Tian
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Paper Abstract

Stripe artifacts, caused by high-absorption or high-scattering structures in the illumination light path, are a common drawback in both unidirectional and multidirectional light sheet fluorescence microscopy (LSFM), significantly deteriorating image quality. To circumvent this problem, we present an effective multidirectional stripe remover (MDSR) method based on nonsubsampled contourlet transform (NSCT), which can be used for both unidirectional and multidirectional LSFM. In MDSR, a fast Fourier transform (FFT) filter is designed in the NSCT domain to shrink the stripe components and eliminate the noise. Benefiting from the properties of being multiscale and multidirectional, MDSR succeeds in eliminating stripe artifacts in both unidirectional and multidirectional LSFM. To validate the method, MDSR has been tested on images from a custom-made unidirectional LSFM system and a commercial multidirectional LSFM system, clearly demonstrating that MDSR effectively removes most of the stripe artifacts. Moreover, we performed a comparative experiment with the variational stationary noise remover and the wavelet-FFT methods and quantitatively analyzed the results with a peak signal-to-noise ratio, showing an improved noise removal when using the MDSR method.

Paper Details

Date Published: 26 October 2016
PDF: 9 pages
J. Biomed. Opt. 21(10) 106005 doi: 10.1117/1.JBO.21.10.106005
Published in: Journal of Biomedical Optics Volume 21, Issue 10
Show Author Affiliations
Xiao Liang, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Yali Zang, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Di Dong, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Liwen Zhang, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Mengjie Fang, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Xin Yang, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Alicia Arranz, Ctr. de Biologia Molecular “Severo Ochoa” (Spain)
Jorge Ripoll, Univ. Carlos III de Madrid (Spain)
Instituto de Investigación Sanitaria del Hospital Gregorio Marañón (Spain)
Hui Hui, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)
Jie Tian, Institute of Automation (China)
Univ. of Chinese Academy of Sciences (China)


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