High dynamic range imaging method for interferometry

Vargas, Javier; Restrepo, René; Quiroga, Juan Antonio; Belenguer, T.

doi:10.1016/j.optcom.2011.04.059

Cited by 13 publications

(8 citation statements)

References 8 publications

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“…The common link between all these approaches is the use of the spiral phase transform, which is used to factorise cryo-EM maps into amplitude and phase terms in real space for different resolutions. The spiral phase transform has been extensively used in optics for phase extraction in interferometry 35 – 39 or by Shack-Hartmann sensors 40 , 41 . This transformation is not new in cryo-EM as it has been proposed previously to facilitate particle screening 42 , CTF estimation 43 and local and directional resolution determination 34 , 44 .…”

Section: Discussionmentioning

confidence: 99%

Local computational methods to improve the interpretability and analysis of cryo-EM maps

et al. 2021

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Cryo-electron microscopy (cryo-EM) maps usually show heterogeneous distributions of B-factors and electron density occupancies and are typically B-factor sharpened to improve their contrast and interpretability at high-resolutions. However, ‘over-sharpening’ due to the application of a single global B-factor can distort processed maps causing connected densities to appear broken and disconnected. This issue limits the interpretability of cryo-EM maps, i.e. ab initio modelling. In this work, we propose 1) approaches to enhance high-resolution features of cryo-EM maps, while preventing map distortions and 2) methods to obtain local B-factors and electron density occupancy maps. These algorithms have as common link the use of the spiral phase transformation and are called LocSpiral, LocBSharpen, LocBFactor and LocOccupancy. Our results, which include improved maps of recent SARS-CoV-2 structures, show that our methods can improve the interpretability and analysis of obtained reconstructions.

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Section: Discussionmentioning

confidence: 99%

Local computational methods to improve the interpretability and analysis of cryo-EM maps

et al. 2021

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“…The common link between all these approaches is the use of the spiral phase transform, which is used to factorize cryo-EM maps into amplitude and phase terms in real space for different resolutions. The spiral phase transform has been extensively used in optics for phase extraction in interferometry (Larkin, Bone et al 2001, Antonio Quiroga and Servin 2003, Vargas, Restrepo et al 2011, Vargas, Quiroga et al 2012 or by Shack-Hartmann sensors (Vargas, González-Fernandez et al 2010, Vargas, Restrepo et al 2012). This transformation is not new in cryo-EM as it has been proposed previously to facilitate particle screening (Vargas, Abrishami et al 2013), CTF estimation (Vargas, Oton et al 2013) and local and directional resolution determination (Vilas, Gomez-Blanco et al 2018, Vilas, Tagare et al 2020.…”

Section: Discussionmentioning

confidence: 99%

Local computational methods to improve the interpretability and analysis of cryo-EM maps

Kaur

Gómez-Blanco

Khalifa

et al. 2020

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Cryo-electron microscopy (cryo-EM) maps usually show heterogeneous distributions of B-factors and electron density occupancies and are typically B-factor sharpened to improve their contrast and interpretability at high-resolutions. However, 'over-sharpening' due to the application of a single global B-factor can distort processed maps causing connected densities to appear broken and disconnected. This issue limits the interpretability of cryo-EM maps, i.e. ab initio modelling.In this work, we propose 1) approaches to enhance high-resolution features of cryo-EM maps, while preventing map distortions and 2) methods to obtain local B-factors and electron density occupancy maps. These algorithms have as common link the use of the spiral phase transformation and are called LocSpiral, LocBSharpen, LocBFactor and LocOccupancy. Our results, which

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“…Then the quality of the reconstructed image is degraded when the inaccurate hologram is used for image reconstruction. Although the technique for expanding the dynamic-range of the recorded interference pattern by using high dynamic-range (HDR) imaging was reported in the field of interferometry [4], any applications of HDR imaging to the digital holography has not been reported yet. In these circumstances, we proposed high dynamic-range digital holography (HDRDH), which expands the dynamic range of a hologram by applying HDR imaging to multiple holograms exposed under different recording conditions, and we numerically confirmed that the HDRDH reconstructs a higher-quality image from the HDR hologram [5].…”

Section: Introductionmentioning

confidence: 99%