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Image processing assisted algorithms for optical projection tomography
Umeå University, Faculty of Medicine, Umeå Centre for Molecular Medicine (UCMM). (Ulf Ahlgren)
Umeå University, Faculty of Medicine, Umeå Centre for Molecular Medicine (UCMM). (Ulf Ahlgren)
Umeå University, Faculty of Science and Technology, Department of Computing Science.
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2012 (English)In: IEEE Transactions on Medical Imaging, ISSN 0278-0062, E-ISSN 1558-254X, Vol. 31, no 1, 1-15 p.Article in journal (Refereed) Published
Abstract [en]

Since it was first presented in 2002, optical projection tomography (OPT) has emerged as a powerful tool for the study of biomedical specimen on the mm to cm scale. In this paper, we present computational tools to further improve OPT image acquisition and tomographic reconstruction. More specifically, these methods provide: semi-automatic and precise positioning of a sample at the axis of rotation and a fast and robust algorithm for determination of postalignment values throughout the specimen as compared to existing methods. These tools are easily integrated for use with current commercial OPT scanners and should also be possible to implement in "home made" or experimental setups for OPT imaging. They generally contribute to increase acquisition speed and quality of OPT data and thereby significantly simplify and improve a number of three-dimensional and quantitative OPT based assessments.

Place, publisher, year, edition, pages
2012. Vol. 31, no 1, 1-15 p.
Keyword [en]
artifacts, axis of rotation (AR), biomedical image processing, islets of Langerhans, optical projection tomography (OPT), pancreas, postalignment
National Category
Medical and Health Sciences
URN: urn:nbn:se:umu:diva-51582DOI: 10.1109/TMI.2011.2161590ISI: 000298782200001PubMedID: 21768046OAI: diva2:484431
Available from: 2012-01-27 Created: 2012-01-27 Last updated: 2016-05-03Bibliographically approved
In thesis
1. The Colours of Diabetes: advances and novel applications of molecular optical techniques for studies of the pancreas
Open this publication in new window or tab >>The Colours of Diabetes: advances and novel applications of molecular optical techniques for studies of the pancreas
2016 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

Diabetes is a rapidly increasing health problem. In a global perspective,approximately 415 million people suffered from diabetes in 2015 and this number ispredicted to increase to 640 million by 2040. To tackle this pandemic there is a needfor better analytical tools by which we can increase our understanding of the disease.One discipline that has already provided much needed insight to diabetes etiology isoptical molecular imaging. Using various forms of light it is possible to create animage of the analysed sample that can provide information about molecularmechanistic aspects of the disease and to follow spatial and temporal dynamics.

The overall aim of this thesis is to improve and adapt existing andnovel optical imaging approaches for their specific use in diabetes research. Hereby,we have focused on three techniques: (I) Optical projection tomography (OPT),which can be described as the optical equivalent of x-ray computed tomography(CT), and two vibrational microspectroscopic (VMS) techniques, which records theunique vibrational signatures of molecules building up the sample: (II) Fouriertransforminfrared vibrational microspectroscopy (FT-IR) and (III) Ramanvibrational microspectroscopy (Raman).

The computational tools and hardware applications presented here generallyimprove OPT data quality, processing speed, sample size and channel capacity.Jointly, these developments enable OPT as a routine tool in diabetes research,facilitating aspects of e.g. pancreatic β-cell generation, proliferation,reprogramming, destruction and preservation to be studied throughout the pancreaticvolume and in large cohorts of experimental animals. Further, a novel application ofmultivariate analysis of VMS data derived from pancreatic tissues is introduced.This approach enables detection of novel biochemical alterations in the pancreasduring diabetes disease progression and can be used to confirm previously reportedbiochemical alterations, but at an earlier stage. Finally, our studies indicate thatRaman imaging is applicable to in vivo studies of grafted islets of Langerhans,allowing for longitudinal studies of pancreatic islet biochemistry.viIn summary, presented here are new and improved methods by which opticalimaging techniques can be utilised to study 3D-spatial, quantitative andmolecular/biochemical alterations of the normal and diseased pancreas.

Place, publisher, year, edition, pages
Umeå: Umeå universitet, 2016. 55 p.
Umeå University medical dissertations, ISSN 0346-6612 ; 1811
Optical projection tomography, Technique development, Near-infrared, 3D visualization, Biomedical imaging, ß-cell mass, Diabetes, Vibrational micro spectroscopy
National Category
Medical Biotechnology (with a focus on Cell Biology (including Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)
urn:nbn:se:umu:diva-119845 (URN)978-91-7601-426-4 (ISBN)
Public defence
2016-05-26, Hörsal Betula, Målpunkt L, Plan 0, Norrlands Universitets sjukhus, Umeå, 09:00 (English)
Available from: 2016-05-04 Created: 2016-04-29 Last updated: 2016-05-26Bibliographically approved

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