Subsegmentation of the Kidney in Experimental MR Images Using Morphology-Based Regions-of-Interest or Multiple-Layer Concentric Objects.

Functional renal MRI promises access to a wide range of physiologically relevant parameters such as blood oxygenation, perfusion, tissue microstructure, pH, and sodium concentration. For quantitative comparison of results, representative values must be extracted from the parametric maps obtained with these different MRI techniques. To improve reproducibility of results this should be done based on regions-of-interest (ROIs) that are clearly and objectively defined.Semiautomated subsegmentation of the kidney in magnetic resonance images represents a simple but very valuable approach for the quantitative analysis of imaging parameters in multiple ROIs that are associated with specific anatomic locations. Thereby, it facilitates comparing MR parameters between different kidney regions, as well as tracking changes over time.Here we provide detailed step-by-step instructions for two recently developed subsegmentation techniques that are suitable for kidneys of small rodents: i) the placement of ROIs in cortex, outer and the inner medulla based on typical kidney morphology and ii) the division of the kidney into concentrically oriented layers.This chapter is based upon work from the COST Action PARENCHIMA, a community-driven network funded by the European Cooperation in Science and Technology (COST) program of the European Union, which aims to improve the reproducibility and standardization of renal MRI biomarkers

Expression of DC-SIGN and DC-SIGNR on human sinusoidal endothelium: a role for capturing hepatitis C virus particles.

Hepatic sinusoidal endothelial cells are unique among endothelial cells in their ability to internalize and process a diverse range of antigens. DC-SIGNR, a type 2 C-type lectin expressed on liver sinusoids, has been shown to bind with high affinity to hepatitis C virus (HCV) E2 glycoprotein. DC-SIGN is a closely related homologue reported to be expressed only on dendritic cells and a subset of macrophages and has similar binding affinity to HCV E2 glycoprotein. These receptors function as adhesion and antigen presentation molecules. We report distinct patterns of DC-SIGNR and DC-SIGN expression in human liver tissue and show for the first time that both C-type lectins are expressed on sinusoidal endothelial cells. We confirmed that these receptors are functional by demonstrating their ability to bind HCV E2 glycoproteins. Although these lectins on primary sinusoidal cells support HCV E2 binding, they are unable to support HCV entry. These data support a model where DC-SIGN and DC-SIGNR on sinusoidal endothelium provide a mechanism for high affinity binding of circulating HCV within the liver sinusoids allowing subsequent transfer of the virus to underlying hepatocytes, in a manner analogous to DC-SIGN presentation of human immunodeficiency virus on dendritic cells

Improvement in the decadal prediction skill of the North Atlantic extratropical winter circulation through increased model resolution

In this study the latest version of the MiKlip decadal hindcast system is analyzed, and the effect of an increased horizontal and vertical resolution on the prediction skill of the extratropical winter circulation is assessed. Four different metrics – the storm track, blocking, cyclone and windstorm frequencies – are analyzed in the North Atlantic and European region. The model bias and the deterministic decadal hindcast skill are evaluated in ensembles of five members in a lower-resolution version (LR, atm: T63L47, ocean: 1.5∘ L40) and a higher-resolution version (HR, atm: T127L95, ocean: 0.4∘ L40) of the MiKlip system based on the Max Planck Institute Earth System model (MPI-ESM). The skill is assessed for the lead winters 2–5 in terms of the anomaly correlation of the quantities' winter averages using initializations between 1978 and 2012. The deterministic predictions are considered skillful if the anomaly correlation is positive and statistically significant. While the LR version shows common shortcomings of lower-resolution climate models, e.g., a storm track that is too zonal and southward displaced as well as a negative bias of blocking frequencies over the eastern North Atlantic and Europe, the HR version counteracts these biases. Cyclones, i.e., their frequencies and characteristics like strength and lifetime, are particularly better represented in HR. As a result, a chain of significantly improved decadal prediction skill between all four metrics is found with the increase in the spatial resolution. While the skill of the storm track is significantly improved primarily over the main source region of synoptic activity – the North Atlantic Current – the other extratropical quantities experience a significant improvement primarily downstream thereof, i.e., in regions where the synoptic systems typically intensify. Thus, the skill of the cyclone frequencies is significantly improved over the central North Atlantic and northern Europe, the skill of the blocking frequencies is significantly improved over the Mediterranean, Scandinavia and eastern Europe, and the skill of the windstorms is significantly improved over Newfoundland and central Europe. Not only is the skill improved with the increase in resolution, but the HR system itself also exhibits significant skill over large areas of the North Atlantic and European sector for all four circulation metrics. These results are particularly promising regarding the high socioeconomic impact of European winter windstorms and blocking situations

A Different Way of Coronary Lesion Preparation: Stentablation and Rotastenting

Calcified coronary lesions are challenging to deal with, as they require optimal lesion preparation. Direct stenting in this scenario is associated with risk of stent-underexpansion, which is related to in-stent restenosis, target lesion revascularization and stent-thrombosis. We report on the interventional management of an underexpanded bare-metal stent not amenable to high-pressure balloon dilation and cutting-balloon. By using rotablation we could abrade the underexpanded stent struts and the calcification with subsequent implantation of a drug-eluting stent. Follow-up of 6 months revealed good results without evidence of significant restenosis. Our clinical experience and case reports in the literature suggest that this strategy might be an option for underexpanded stents not amenable to conventional techniques

Performance of compressed sensing for fluorine-19 magnetic resonance imaging at low signal-to-noise ratio conditions

PURPOSE: To examine the performance of compressed sensing (CS) in reconstructing low signal-to-noise ratio (SNR) (19)F MR signals that are close to the detection threshold and originate from small signal sources with no a priori known location. METHODS: Regularization strength was adjusted automatically based on noise level. As performance metrics, root-mean-square deviations, true positive rates (TPRs), and false discovery rates were computed. CS and conventional reconstructions were compared at equal measurement time and evaluated in relation to high-SNR reference data. (19)F MR data were generated from a purpose-built phantom and benchmarked against simulations, as well as from the experimental autoimmune encephalomyelitis mouse model. We quantified the signal intensity bias and introduced an intensity calibration for in vivo data using high-SNR ex vivo data. RESULTS: Low-SNR (19)F MR data could be reliably reconstructed. Detection sensitivity was consistently improved and data fidelity was preserved for undersampling and averaging factors of α = 2 or = 3. Higher α led to signal blurring in the mouse model. The improved TPRs at α = 3 were comparable to a 2.5-fold increase in measurement time. Whereas CS resulted in a downward bias of the (19)F MR signal, Fourier reconstructions resulted in an unexpected upward bias of similar magnitude. The calibration corrected signal-intensity deviations for all reconstructions. CONCLUSION: CS is advantageous whenever image features are close to the detection threshold. It is a powerful tool, even for low-SNR data with sparsely distributed (19)F signals, to improve spatial and temporal resolution in (19)F MR applications

Initializing decadal climate predictions with the GECCO oceanic synthesis

This study aims at improving the forecast skill of climate predictions through the use of ocean synthesis data for initial conditions of a coupled climate model. For this purpose, the coupled model of the Max Planck Institute (MPI) for Meteorology, which consists of the atmosphere model ECHAM5 and the MPI Ocean Model (MPI-OM), is initialized with oceanic synthesis fields available from the German contribution to Estimating the Circulation and Climate of the Ocean (GECCO) project. The use of an anomaly coupling scheme during the initialization avoids the main problems with drift in the climate predictions. Thus, the coupled model is continuously forced to follow the density anomalies of the GECCO synthesis over the period 1952-2001. Hindcast experiments are initialized from this experiment at constant intervals. The results show predictive skill through the initialization up to the decadal time scale, particularly over the North Atlantic. Viewed over the time scales analyzed here (annual, 5-yr, and 10-yr mean), greater skill for the North Atlantic sea surface temperature (SST) is obtained in the hindcast experiments than in either a damped persistence or trend forecast. The Atlantic meridional overturning circulation hindcast closely follows that of the GECCO oceanic synthesis. Hindcasts of global-mean temperature do not obtain greater skill than either damped persistence or a trend forecast, owing to the SST errors in the GECCO synthesis, outside the North Atlantic. An ensemble of forecast experiments is subsequently performed over the period 2002-11. North Atlantic SST from the forecast experiment agrees well with observations until the year 2007, and it is higher than if simulated without the oceanic initialization (averaged over the forecast period). The results confirm that both the initial and the boundary conditions must be accounted for in decadal climate predictions

Investigation on the trophic state of the North Sea for three years (1994?1996) simulated with the ecosystem model ERSEM ? the role of a sharp NAOI decline

International audienceApplying the ecosystem model ERSEM to the Northwest-European shelf (48°?63°N, 15°W?12°E) the years 1994-1996 were simulated, which exhibit an extremely strong transition in North Atlantic Oscillation index (NAOI): from a high-NAOI to a low-NAOI regime. In order to be far enough from the boundaries of the model area the results and budgets are focussed on the North Sea area. For this region the model was validated against climatological values of nitrate as representative nutrient. For all three years the North Sea was found to be net heterotrophic: organic material was imported, inorganic material was exported. The strength of this "remineralisation-machine" was large during NAOI-high years (1994 and 1995). It was weaker in 1996 with a low NAOI. This was caused by higher net primary production in the northern North Sea during summer 1996. In this year the stratification was weaker and began later allowing the deep nutrient-rich water in the northern North Sea to be mixed into the upper layers also during early summer

Probing renal blood volume with magnetic resonance imaging

Damage to the kidney substantially reduces life expectancy. Renal tissue hypoperfusion and hypoxia are key elements in the pathophysiology of acute kidney injury and its progression to chronic kidney disease. In vivo assessment of renal haemodynamics and tissue oxygenation remains a challenge. Blood oxygenation level dependent (BOLD) magnetic resonance imaging (MRI) is sensitive to changes in the effective transversal relaxation time (T(2)*) in vivo, is non-invasive and indicative of renal tissue oxygenation. However, the renal T(2)* to tissue pO(2) relationship is not governed exclusively by renal blood oxygenation, but is affected by physiological confounders with alterations in renal blood volume fraction (BVf) being of particular relevance. To decipher this interference probing renal BVf is essential for the pursuit of renal MR oximetry. Superparamagnetic iron oxide nanoparticle (USPIO) preparations can be used as MRI visible blood pool markers for detailing alterations in BVf. This review promotes the opportunities of MRI based assessment of renal BVf. Following an outline on the specifics of renal oxygenation and perfusion, changes in renal BVf upon interventions and their potential impact on renal T(2)* are discussed. We also describe the basic principles of renal BVf assessment using ferumoxytol enhanced MRI in the equilibrium concentration regime. We demonstrate that ferumoxytol does not alter control of renal haemodynamics and oxygenation. Preclinical applications of ferumoxytol enhanced renal MRI as well as considerations for its clinical implementation for examining renal BVf changes are provided alongside practical considerations. Finally, we explore the future directions of MRI based assessment of renal BVf

B(1) inhomogeneity correction of RARE MRI with transceive surface radiofrequency probes

PURPOSE: The use of surface radiofrequency (RF) coils is common practice to boost sensitivity in (pre)clinical MRI. The number of transceive surface RF coils is rapidly growing due to the surge in cryogenically cooled RF technology and ultrahigh‐field MRI. Consequently, there is an increasing need for effective correction of the excitation field (B(1)(+)) inhomogeneity inherent in these coils. Retrospective B(1) correction permits quantitative MRI, but this usually requires a pulse sequence‐specific analytical signal intensity (SI) equation. Such an equation is not available for fast spin‐echo (Rapid Acquisition with Relaxation Enhancement, RARE) MRI. Here we present, test, and validate retrospective B(1) correction methods for RARE. METHODS: We implemented the commonly used sensitivity correction and developed an empirical model‐based method and a hybrid combination of both. Tests and validations were performed with a cryogenically cooled RF probe and a single‐loop RF coil. Accuracy of SI quantification and T(1) contrast were evaluated after correction. RESULTS: The three described correction methods achieved dramatic improvements in B(1) homogeneity and significantly improved SI quantification and T(1) contrast, with mean SI errors reduced from >40% to >10% following correction in all cases. Upon correction, images of phantoms and mouse heads demonstrated homogeneity comparable to that of images acquired with a volume resonator. This was quantified by SI profile, SI ratio (error 80% in vivo and ex vivo compared to PIU > 87% with the reference RF coil). CONCLUSIONS: This work demonstrates the efficacy of three B(1) correction methods tailored for transceive surface RF probes and RARE MRI. The corrected images are suitable for quantification and show comparable results between the three methods, opening the way for T(1) measurements and X‐nuclei quantification using surface transceiver RF coils. This approach is applicable to other MR techniques for which no analytical SI exists