Hugo Rositi

Computer vision tools to optimize reconstruction parameters in x-ray in-line phase tomography

In this article, a set of three computer vision tools, including scale invariant feature transform (SIFT), a measure of focus, and a measure based on tractography are demonstrated to be useful in replacing the eye of the expert in the optimization of the reconstruction parameters in x-ray in-line phase tomography. We demonstrate how these computer vision tools can be used to inject priors on the shape and scale of the object to be reconstructed. This is illustrated with the Paganin single intensity image phase retrieval algorithm in heterogeneous soft tissues of biomedical interest, where the selection of the reconstruction parameters was previously made from visual inspection or physical assumptions on the composition of the sample.

Information-based analysis of X-ray in-line phase tomography with application to the detection of iron oxide nanoparticles in the brain

The study analyzes noise in X-ray in-line phase tomography in a biomedical context. The impact of noise on detection of iron oxide nanoparticles in mouse brain is assessed. The part of the noise due to the imaging system and the part due to biology are quantitatively expressed in a Neyman Pearson detection strategy with two models of noise. This represents a practical extension of previous work on noise in phase-contrast X-ray imaging which focused on the theoretical expression of the signal-to-noise ratio in mono-dimensional phantoms, taking account of the statistical noise of the imaging system only. We also report the impact of the phase retrieval step on detection performance. Taken together, this constitutes a general methodology of practical interest for quantitative extraction of information from X-ray in-line phase tomography, and is also relevant to assessment of contrast agents with a blob-like signature in high resolution imaging.

Ferritin surplus in mouse spleen 14 months after intravenous injection of iron oxide nanoparticles at clinical dose

In this study, we followed the biodegradation of ultra-small superparamagnetic iron oxide nanoparticles injected intravenously at clinical doses in mice. An advanced fitting procedure for magnetic susceptibility curves and low-temperature hysteresis loops was used to fully characterize the magnetic size distribution as well as the magnetic anisotropy energy of the injected P904 nanoparticles (Guerbet Laboratory). Additional magnetometry measurements and transmission electronic microscopy observations were systematically performed to examine dehydrated samples from the spleen and liver of healthy C57B16 mice after nanoparticle injection, with sacrifice of the mice for up to 14 months. At 3 months after injection, the magnetic properties of the spleen and liver were dramatically different. While the liver showed no magnetic signals other than those also present in the reference species, the spleen showed an increased magnetic signal attributed to ferritin. This surplus of ferritin remained constant up to 14 months after injection.

Comparison of propagation-based phase contrast tomography and full-field optical coherence tomography on bone tissue

The current huge development of new 3D microscopic techniques (synchrotron microtomography, optical coherence tomography, light sheet microscopy, …) opens a large variety of new perspectives for life sciences. The contrasts of these new microscopies are mostly well understood on samples of known material content such as those used in physics or instrumentation studies. The situation is different when it comes to the interpretation of the contrasts observed with complex heterogeneous media found in biology. Therefore determining which 3D microscopy technique is suited for which biological question is a topic of current interest (see [1,2] for instance in our group).In this communication, we propose a comparison of the contrast observed with full-field optical coherence tomography (OCT) and propagation-based phase contrast tomography (PCT) on bone tissue at similar spatial resolution. A first comparison of OCT with standard absorption microtomography was given in [3] for bones and we extend this comparison to PCT which is known to provide enhanced contrast on bones at multiple scales [4]. The contrast of both these techniques are a priori interesting to be compared since they both rely on discontinuities of refraction index. This produces phase shift in PCT which operates in the X-ray domain with a monochromatic beam (generated by a synchrotron) while this generates direct intensity reflexion with OCT which only resorts to white light in the visible domain.