Imperial College London

DrJamesMcGinty

Faculty of Natural SciencesDepartment of Physics

Senior Lecturer
 
 
 
//

Contact

 

+44 (0)20 7594 7719james.mcginty

 
 
//

Location

 

621Blackett LaboratorySouth Kensington Campus

//

Summary

 

Publications

Citation

BibTex format

@article{Correia:2015:10.1371/journal.pone.0136213,
author = {Correia, T and Lockwood, N and Kumar, S and Yin, J and Ramel, M-C and Andrews, N and Katan, M and Bugeon, L and Dallman, MJ and McGinty, J and Frankel, P and French, PMW and Arridge, S},
doi = {10.1371/journal.pone.0136213},
journal = {PLOS One},
title = {Accelerated optical projection tomography applied to in vivo imaging of zebrafish},
url = {http://dx.doi.org/10.1371/journal.pone.0136213},
volume = {10},
year = {2015}
}

RIS format (EndNote, RefMan)

TY  - JOUR
AB - Optical projection tomography (OPT) provides a non-invasive 3-D imaging modality that can be applied to longitudinal studies of live disease models, including in zebrafish. Current limitations include the requirement of a minimum number of angular projections for reconstruction of reasonable OPT images using filtered back projection (FBP), which is typically several hundred, leading to acquisition times of several minutes. It is highly desirable to decrease the number of required angular projections to decrease both the total acquisition time and the light dose to the sample. This is particularly important to enable longitudinal studies, which involve measurements of the same fish at different time points. In this work, we demonstrate that the use of an iterative algorithm to reconstruct sparsely sampled OPT data sets can provide useful 3-D images with 50 or fewer projections, thereby significantly decreasing the minimum acquisition time and light dose while maintaining image quality. A transgenic zebrafish embryo with fluorescent labelling of the vasculature was imaged to acquire densely sampled (800 projections) and under-sampled data sets of transmitted and fluorescence projection images. The under-sampled OPT data sets were reconstructed using an iterative total variation-based image reconstruction algorithm and compared against FBP reconstructions of the densely sampled data sets. To illustrate the potential for quantitative analysis following rapid OPT data acquisition, a Hessian-based method was applied to automatically segment the reconstructed images to select the vasculature network. Results showed that 3-D images of the zebrafish embryo and its vasculature of sufficient visual quality for quantitative analysis can be reconstructed using the iterative algorithm from only 32 projections—achieving up to 28 times improvement in imaging speed and leading to total acquisition times of a few seconds.
AU - Correia,T
AU - Lockwood,N
AU - Kumar,S
AU - Yin,J
AU - Ramel,M-C
AU - Andrews,N
AU - Katan,M
AU - Bugeon,L
AU - Dallman,MJ
AU - McGinty,J
AU - Frankel,P
AU - French,PMW
AU - Arridge,S
DO - 10.1371/journal.pone.0136213
PY - 2015///
SN - 1932-6203
TI - Accelerated optical projection tomography applied to in vivo imaging of zebrafish
T2 - PLOS One
UR - http://dx.doi.org/10.1371/journal.pone.0136213
UR - http://hdl.handle.net/10044/1/32605
VL - 10
ER -