Stripe artifact elimination based on nonsubsampled contourlet transform for light sheet fluorescence microscopy Articles uri icon

authors

  • LIANG, XIAO
  • ZANG, YALI
  • DONG, DI
  • ZHANG, LIWEN
  • FANG, MENGJIE
  • YANG, XIN
  • ARANZ, ALICIA
  • RIPOLL LORENZO, JORGE
  • HUI, HUI
  • TIAN, JIE

publication date

  • October 2016

issue

  • 10

volume

  • 21

international standard serial number (ISSN)

  • 1083-3668

electronic international standard serial number (EISSN)

  • 1560-2281

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. (C) 2016 Society of Photo-Optical Instrumentation Engineers (SPIE)

keywords

  • Light sheet fluorescence microscopy; Nonsubsampled contourlet transform; Stripe artifact; Plane illumination microscopy; Single-cell resolution; Tomography; Algorithm; Images