Ground Truth Map Research Articles

Improved Dementia Prediction in Cerebral Small Vessel Disease Using Deep Learning-Derived Diffusion Scalar Maps From T1.

Cerebral small vessel disease is the most common pathology underlying vascular dementia. In small vessel disease, diffusion tensor imaging is more sensitive to white matter damage and better predicts dementia risk than conventional magnetic resonance imaging sequences, such as T1 and fluid attenuation inversion recovery, but diffusion tensor imaging takes longer to acquire and is not routinely available in clinical practice. As diffusion tensor imaging-derived scalar maps-fractional anisotropy (FA) and mean diffusivity (MD)-are frequently used in clinical settings, one solution is to synthesize FA/MD from T1 images. We developed a deep learning model to synthesize FA/MD from T1. The training data set consisted of 4998 participants with the highest white matter hyperintensity volumes in the UK Biobank. Four external validations data sets with small vessel disease were included: SCANS (St George's Cognition and Neuroimaging in Stroke; n=120), RUN DMC (Radboud University Nijmegen Diffusion Tensor and Magnetic Resonance Imaging Cohort; n=502), PRESERVE (Blood Pressure in Established Cerebral Small Vessel Disease; n=105), and NETWORKS (n=26), along with 1000 normal controls from the UK Biobank. The synthetic maps resembled ground-truth maps (structural similarity index >0.89 for MD maps and >0.80 for FA maps across all external validation data sets except for SCANS). The prediction accuracy of dementia using whole-brain median MD from the synthetic maps is comparable to the ground truth (SCANS ground-truth c-index, 0.822 and synthetic, 0.821; RUN DMC ground truth, 0.816 and synthetic, 0.812) and better than white matter hyperintensity volume (SCANS, 0.534; RUN DMC, 0.710). We have developed a fast and generalizable method to synthesize FA/MD maps from T1 to improve the prediction accuracy of dementia in small vessel disease when diffusion tensor imaging data have not been acquired.

Myo-regressor Deep Informed Neural NetwOrk (Myo-DINO) for fast MR parameters mapping in neuromuscular disorders

Magnetic Resonance (MR) parameters mapping in muscle Magnetic Resonance Imaging (mMRI) is predominantly performed using pattern recognition-based algorithms, which are characterised by high computational costs and scalability issues in the context of multi-parametric mapping.Deep Learning (DL) has been demonstrated to be a robust and efficient method for rapid MR parameters mapping. However, its application in mMRI domain to investigate Neuromuscular Disorders (NMDs) has not yet been explored. In addition, data-driven DL models suffered in interpretation and explainability of the learning process. We developed a Physics Informed Neural Network called Myo-Regressor Deep Informed Neural NetwOrk (Myo-DINO) for efficient and explainable Fat Fraction (FF), water-T2 (wT2) and B1 mapping from a cohort of NMDs.A total of 2165 slices (232 subjects) from Multi-Echo Spin Echo (MESE) images were selected as the input dataset for which FF, wT2,B1 ground truth maps were computed using the MyoQMRI toolbox. This toolbox exploits the Extended Phase Graph (EPG) theory with a two-component model (water and fat signal) and slice profile to simulate the signal evolution in the MESE framework. A customized U-Net architecture was implemented as the Myo-DINO architecture. The squared L2 norm loss was complemented by two distinct physics models to define two ‘Physics-Informed’ loss functions: Cycling Loss 1 embedded a mono-exponential model to describe the relaxation of water protons, while Cycling Loss 2 incorporated the EPG theory with slice profile to model the magnetization dephasing under the effect of gradients and RF pulses. The Myo-DINO was trained with the hyperparameter value of the 'Physics-Informed' component held constant, i.e. λmodel = 1, while different hyperparameter values (λcnn) were applied to the squared L2 norm component in both the cycling loss. In particular, hard (λcnn=10), normal (λcnn=1) and self-supervised (λcnn=0) constraints were applied to gradually decrease the impact of the squared L2 norm component on the ‘Physics Informed’ term during the Myo-DINO training process.Myo-DINO achieved higher performance with Cycling Loss 2 for FF, wT2 and B1 prediction. In particular, high reconstruction similarity and quality (Structural Similarity Index > 0.92, Peak Signal to Noise ratio > 30.0 db) and small reconstruction error (Normalized Root Mean Squared Error < 0.038) to the reference maps were shown with self-supervised weighting of the Cycling Loss 2. In addition muscle-wise FF, wT2 and B1 predicted values showed good agreement with the reference values. The Myo-DINO has been demonstrated to be a robust and efficient workflow for MR parameters mapping in the context of mMRI. This provides preliminary evidence that it can be an effective alternative to the reference post-processing algorithm. In addition, our results demonstrate that Cycling Loss 2, which incorporates the Extended Phase Graph (EPG) model, provides the most robust and relevant physical constraints for Myo-DINO in this multi-parameter regression task. The use of Cycling Loss 2 with self-supervised constraint improved the explainability of the learning process because the network acquired domain knowledge solely in accordance with the assumptions of the EPG model.

Graph Sampling for Map Comparison

Comparing two road maps is a basic operation that arises in a variety of situations. A map comparison method that is commonly used, mainly in the context of comparing reconstructed maps to ground-truth maps, is based on graph sampling . The essential idea is to first compute a set of point samples on each map and then to match pairs of samples—one from each map—in a one-to-one fashion. For deciding whether two samples can be matched, different criteria, e.g., based on distance or orientation, can be used. The total number of matched pairs gives a measure of how similar the maps are. Since the work of Biagioni and Eriksson [ 11 , 12 ], graph sampling methods have become widely used. However, there are different ways to implement each of the steps, which can lead to significant differences in the results. This means that conclusions drawn from different studies that seemingly use the same comparison method cannot necessarily be compared. In this work we present a unified approach to graph sampling for map comparison. We present the method in full generality, discussing the main decisions involved in its implementation. In particular, we point out the importance of the sampling method (GEO vs. TOPO) and that of the matching definition, discussing the main options used, and proposing alternatives for both key steps. We experimentally evaluate the different sampling and matching options considered on map datasets and reconstructed maps. Furthermore, we provide a code base and an interactive visualization tool to set a standard for future evaluations in the field of map construction and map comparison.

Evaluating pasture cover density mapping: a comparative analysis of Sentinel-2 and Spot-5 multispectral sensor images

Vegetation density extraction is influenced by the characteristics of satellite images, vegetation type, classification algorithm, and region, but there is little information about multispectral imaging (MSI). Studying the compatibility of the information content of sensors to replace sensors in areas where there is no easy access to their data is necessary for remote sensing (RS) studies. This study aims to assess the suitability of MSI from Sentinel-2 and Spot-5 satellites for generating pasture density maps. The Middle Kashkan watershed in the Lorestan Province of Iran was the study area. Geometric correction of the images was performed using ground control points (GCP) and the area's digital elevation model, achieving an accuracy of 0.21 pixels or better. Supervised classification techniques including parallelogram, minimal distance, maximum likelihood, and artificial neural network (ANN) algorithms were applied to the primary MSI of each satellite, as well as the integrated image of Spot-5 and the resulting pasture density map. Three density categories were considered: 5–25%, 25–50%, and over 50%. To validate the accuracy of the classification, a ground truth map of the region was created by interpreting a referenced official digital orthophotomosaic image at a scale of 1:40,000. Comparative analysis of the classified images revealed that the Sentinel-2 image with PCA-2-8 band composition and ANN classification algorithm yielded superior results, with an overall accuracy of 65.72% and a kappa coefficient of 0.08, compared to the Spot-5 image with PCA-3-1 band composition and the ANN classification algorithm. Spot-5 satellite images demonstrated greater effectiveness in generating pasture cover maps across the three density categories. These findings suggest that satellite images with suitable spatial and spectral resolution can be effectively utilized for generating accurate pasture density maps and monitoring long-term pasture preservation, particularly in regions characterized by high aerial photography altitudes in pasture areas. This approach holds the potential for effective pasture management and conservation efforts on a global scale.

An advanced classification method for urban land cover classification

This manuscript presents a detailed comparative analysis of three advanced classification techniques that were used between 2018 and 2020 to classify land cover using Landsat8 imagery, namely Support Vector Machine (SVM), Maximum Likelihood Classification (MLSC), and Random Forests (RF). The study focuses on evaluating the accuracy of these methods by comparing the classified maps with a higher-resolution ground truth map, utilising 500 randomly selected points for assessment. The obtained results show that, compared to MLSC and RT, the Support Vector Machine (SVM) approach performs better. The SVM model demonstrates enhanced precision in land cover classification, showcasing its effectiveness in discerning subtle differences in landscape features. Furthermore, using the precise classification results produced by the SVM method, this study examines the temporal variations in land cover between 2018 and 2020. The results provide insight into dynamic land cover changes and highlight the significance of applying reliable classification techniques for thorough temporal analysis with Landsat8 images.

SLAMB&amp;MAI: a comprehensive methodology for SLAM benchmark and map accuracy improvement

AbstractSLAM Benchmark plays a pivotal role in the field by providing a common ground for performance evaluation. In this paper, a novel methodology of simultaneous localization and mapping benchmark and map accuracy improvement (SLAMB&amp;MAI) is introduced. It can objectively evaluate errors of localization and mapping, and further improve map accuracy by utilizing evaluation results as feedback. The proposed benchmark transforms all elements into a global frame and measures the errors between them. The comprehensiveness consists in the benchmark of both localization and mapping, and the objectivity consists in the consideration of the correlation between localization and mapping by the preservation of the original pose relations between all reference frames. The map accuracy improvement is realized by first obtaining the optimization that minimizes the errors between the estimated trajectory and ground truth trajectory and then applying it to the estimated map. The experimental results showed that the map accuracy can be improved by an average of 15%. The optimization that yields minimal localization errors is obtained by the proposed Centre Point Registration-Iterative Closest Point (CPR-ICP). This proposed Iterative Closest Point (ICP) variant pre-aligns two point clouds by their centroids and least square planes and then uses traditional ICP to minimize the error between them. The experimental results showed that CPR-ICP outperformed traditional ICP, especially in cases involving large-scale environments. To the extent of our knowledge, this is the first work that can not only objectively benchmark both localization and mapping but also revise the estimated map and increase its accuracy, which provides insights into the acquisition of ground truth map and robot navigation.

Sparse annotation learning for dense volumetric MR image segmentation with uncertainty estimation

Objective. Training neural networks for pixel-wise or voxel-wise image segmentation is a challenging task that requires a considerable amount of training samples with highly accurate and densely delineated ground truth maps. This challenge becomes especially prominent in the medical imaging domain, where obtaining reliable annotations for training samples is a difficult, time-consuming, and expert-dependent process. Therefore, developing models that can perform well under the conditions of limited annotated training data is desirable. Approach. In this study, we propose an innovative framework called the extremely sparse annotation neural network (ESA-Net) that learns with only the single central slice label for 3D volumetric segmentation which explores both intra-slice pixel dependencies and inter-slice image correlations with uncertainty estimation. Specifically, ESA-Net consists of four specially designed distinct components: (1) an intra-slice pixel dependency-guided pseudo-label generation module that exploits uncertainty in network predictions while generating pseudo-labels for unlabeled slices with temporal ensembling; (2) an inter-slice image correlation-constrained pseudo-label propagation module which propagates labels from the labeled central slice to unlabeled slices by self-supervised registration with rotation ensembling; (3) a pseudo-label fusion module that fuses the two sets of generated pseudo-labels with voxel-wise uncertainty guidance; and (4) a final segmentation network optimization module to make final predictions with scoring-based label quantification. Main results. Extensive experimental validations have been performed on two popular yet challenging magnetic resonance image segmentation tasks and compared to five state-of-the-art methods. Significance. Results demonstrate that our proposed ESA-Net can consistently achieve better segmentation performances even under the extremely sparse annotation setting, highlighting its effectiveness in exploiting information from unlabeled data.

Automatic building footprint extraction from photogrammetric and LiDAR point clouds using a novel improved-Octree approach

Extracting building footprints from optical data is a time-consuming process. Automatic extraction of building footprints from point clouds is a challenging problem in terms of geometric irregularities, noisy points, points density, and accuracy. The aim of this paper is to automatically extract and regularize building footprints using point clouds with a new approach called Improved Octree (I-Octree) by modifying the Octree method. The method consists of the separation of ground and above ground objects from the point cloud by Simple Morphological Filter (SMRF), the removing noisy points from point cloud with Density-Based Spatial Clustering of Applications with Noise (DBSCAN) algorithm, the automatic extraction of building footprints by I-Octree, and the regularization of the building footprints with Automatic Building Outline Regularization (ABORE) method. The proposed approach was implemented on photogrammetric and Light Detection and Ranging (LiDAR) in four test areas. Ground truth maps were utilized as reference data for accuracy analysis by using pixel-based accuracy method. The accuracy results were above 90 % for the photogrammetric point clouds and above 97 % for the LiDAR point cloud. It was proven that the proposed approach can extract and regularize the selected buildings with high accuracy compared the studies in literature. In conclusion, it was demonstrated that the proposed approach enables the automatic extraction and regularization of building footprints from point clouds. Consequently, the map production process with point cloud data is facilitated to be both more efficient and rapid, and the results confirm the high efficacy of the proposed approach.

Semiautomatic Mapping of Center Pivot Irrigated Areas Using Sentinel-2 Images and GEOBIA Approach

Image analysis and feature extraction of remoted sensing data are significant for mapping irrigated agriculture areas as a source of information to improve water management and agricultural planning. This paper presents an image segmented base approach GEOBIA (Geographic Object-Based Image Analysis) to extract irrigated areas by Center Pivot Irrigation System (CPIS). This study suggests a semi-automated recognition of circular patterns for the mapping of irrigated regions by center pivots, using Sentinel -2 MSI images, 10 meters spatial resolution. A set of images from different seasons, humid and dry are used to maximize de CPIS’s occurrence. A multiresolution segmentation method was applied, and a large number of segment-based shape features was extracted and used as input to a feature selection procedure (shape descriptors: Area; Compactness; Circularity Factor; Length/Width; Radius of smallest enclosing ellipse; and Roundness). In addition, another shape descriptor “Circularity Factor” was developed in this research and played an important role during preliminaries classification processes. The accuracy assessment of preliminaries classifications has validated used the Circularity Factor together with the other chosen shape descriptors to reach better results to CPIS’s detection. Furthermore, 86.23% of the CPIS mapped in the classification process is in accordance with the ground truth map. This methodology can be used to map large areas in a relatively short time and provides a tool for monitoring irrigated areas.

Saliency prediction in 360° architectural scenes: Performance and impact of daylight variations

Saliency models are image-based prediction models that estimate human visual attention. Such models, when applied to architectural spaces, could pave the way for design decisions where visual attention is taken into account. In this study, we tested the performance of eleven commonly used saliency models that combine traditional and deep learning methods on 126 rendered interior scenes with associated head tracking data. The data was extracted from three experiments conducted in virtual reality between 2016 and 2018. Two of these datasets pertain to the perceptual effects of daylight and include variations of daylighting conditions for a limited set of interior spaces, thereby allowing to test the influence of light conditions on human head movement. Ground truth maps were extracted from the collected head tracking logs, and the prediction accuracy of the models was tested via the correlation coefficient between ground truth and prediction maps. To address the possible inflation of results due to the equator bias, we conducted complementary analyses by restricting the area of investigation to the equatorial image regions. Although limited to immersive virtual environments, the promising performance of some traditional models such as GBVS360eq and BMS360eq for colored and textured architectural rendered spaces offers us the prospect of their possible integration into design tools. We also observed a strong correlation in head movements for the same space lit by different types of sky, a finding whose generalization requires further investigations based on datasets more specifically developed to address this question.

Self-Supervised Depth Correction of Lidar Measurements From Map Consistency Loss

Depth perception is considered an invaluable source of information in the context of 3D mapping and various robotics applications. However, point cloud maps acquired using consumer-level <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">light detection and ranging</i> sensors (lidars) still suffer from bias related to local surface properties such as measuring beam-to-surface incidence angle. This fact has recently motivated researchers to exploit traditional filters, as well as the deep learning paradigm, in order to suppress the aforementioned depth sensors error while preserving geometric and map consistency details. Despite the effort, depth correction of lidar measurements is still an open challenge mainly due to the lack of clean 3D data that could be used as ground truth. In this paper, we introduce two novel point cloud map consistency losses, which facilitate self-supervised learning on real data of lidar depth correction models. Specifically, the models exploit multiple point cloud measurements of the same scene from different view-points in order to learn to reduce the bias based on the constructed map consistency signal. Complementary to the removal of the bias from the measurements, we demonstrate that the depth correction models help to reduce localization drift. Additionally, we release a data set that contains point cloud scans captured in an indoor corridor environment with precise localization and ground truth mapping information <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex-math notation="LaTeX">$^{1}$</tex-math></inline-formula> .

A dataset of multi-source and multi-temporal remote sensing data of cash crop planting structure in Yangling Agricultural Demonstration Zone

Satellite remote sensing technology can obtain the distribution of ground objects on a large scale in a timely manner, and provide great data and technical support for the acquisition of information on the planting structure of cash crops. Taking Yangling Agricultural Demonstration Area as the research area, this dataset is composed of four parts: remote sensing data, ground truth data, Yangling boundary and classification results. The remote sensing data consist of satellite data, such as Sentinel-2, Gaofen-1 (including Gaofen-1C satellite), Gaofen-2, and Gaofen-6 from April to September in 2021 after radiation correction, atmospheric correction, and remote sensing image processing such as orthorectification, image fusion, and image registration. Through on-the-spot investigation, visual interpretation of Google Earth, and near-ground remote sensing of UAVs in small areas, we established the ground truth distribution verification area. In terms of quality control, the remote sensing data are characteristic of little overall cloud content, uniform color, and a spatial resolution of 2m; the ground truth map, authentic and reliable, is drawn through field surveys. The dataset has been verified by random forest algorithm, and the overall classification accuracy is 86.17%. It can provide training samples for the research and application of related algorithms in the acquisition of cash crop planting structure, and can also provide data support for land use classification and changes as well as crop growth monitoring in Yangling Demonstration Zone.

A Benchmark for Multi-Modal LiDAR SLAM with Ground Truth in GNSS-Denied Environments

LiDAR-based simultaneous localization and mapping (SLAM) approaches have obtained considerable success in autonomous robotic systems. This is in part owing to the high accuracy of robust SLAM algorithms and the emergence of new and lower-cost LiDAR products. This study benchmarks the current state-of-the-art LiDAR SLAM algorithms with a multi-modal LiDAR sensor setup, showcasing diverse scanning modalities (spinning and solid state) and sensing technologies, and LiDAR cameras, mounted on a mobile sensing and computing platform. We extend our previous multi-modal multi-LiDAR dataset with additional sequences and new sources of ground truth data. Specifically, we propose a new multi-modal multi-LiDAR SLAM-assisted and ICP-based sensor fusion method for generating ground truth maps. With these maps, we then match real-time point cloud data using a normal distributions transform (NDT) method to obtain the ground truth with a full six-degrees-of-freedom (DOF) pose estimation. These novel ground truth data leverage high-resolution spinning and solid-state LiDARs. We also include new open road sequences with GNSS-RTK data and additional indoor sequences with motion capture (MOCAP) ground truth, complementing the previous forest sequences with MOCAP data. We perform an analysis of the positioning accuracy achieved, comprising ten unique configurations generated by pairing five distinct LiDAR sensors with five SLAM algorithms, to critically compare and assess their respective performance characteristics. We also report the resource utilization in four different computational platforms and a total of five settings (Intel and Jetson ARM CPUs). Our experimental results show that the current state-of-the-art LiDAR SLAM algorithms perform very differently for different types of sensors. More results, code, and the dataset can be found at GitHub.

Modelling Urban Heat Island with Landsat Images and LiDAR Datasets

The environmental problems caused by rapid and uncontrolled urbanization are increasing day by day. When the needs of the growing population are also in question, urbanization problems become unavoidable when considered on a global scale. Since housing is one of the most important population-related needs, there is an increase in urban areas and an expansion of working areas. Therefore, while urban areas are increasing, forested or green areas are shrinking. Decreasing green areas play a very important role in increasing surface temperature. This increase in cities, which are warmer than the surrounding rural areas, is briefly called Urban Heat Island (UHI). Urban Thermal Field Variance Index (UTFVI) was used to calculate the UHI effect. This index, produced from thermal tapes, determines the severity of UHI. For this study, attributes were created using Landsat, LiDAR, and Open Street Map data to estimate UHI severity without the aid of thermal bands. Using these features, a random forest machine learning algorithm was trained, and UHI severity maps were estimated. For the city of Sioux Falls, which was selected as the study area, data for the years 2008 and 2020 were used. UHI forecast maps for these years were produced and compared with ground truth maps.

Neural network-derived perfusion maps: A model-free approach to computed tomography perfusion in patients with acute ischemic stroke.

In this study, we investigate whether a Convolutional Neural Network (CNN) can generate informative parametric maps from the pre-processed CT perfusion data in patients with acute ischemic stroke in a clinical setting. The CNN training was performed on a subset of 100 pre-processed perfusion CT dataset, while 15 samples were kept for testing. All the data used for the training/testing of the network and for generating ground truth (GT) maps, using a state-of-the-art deconvolution algorithm, were previously pre-processed using a pipeline for motion correction and filtering. Threefold cross validation had been used to estimate the performance of the model on unseen data, reporting Mean Squared Error (MSE). Maps accuracy had been checked through manual segmentation of infarct core and total hypo-perfused regions on both CNN-derived and GT maps. Concordance among segmented lesions was assessed using the Dice Similarity Coefficient (DSC). Correlation and agreement among different perfusion analysis methods were evaluated using mean absolute volume differences, Pearson correlation coefficients, Bland-Altman analysis, and coefficient of repeatability across lesion volumes. The MSE was very low for two out of three maps, and low in the remaining map, showing good generalizability. Mean Dice scores from two different raters and the GT maps ranged from 0.80 to 0.87. Inter-rater concordance was high, and a strong correlation was found between lesion volumes of CNN maps and GT maps (0.99, 0.98, respectively). The agreement between our CNN-based perfusion maps and the state-of-the-art deconvolution-algorithm perfusion analysis maps, highlights the potential of machine learning methods applied to perfusion analysis. CNN approaches can reduce the volume of data required by deconvolution algorithms to estimate the ischemic core, and thus might allow the development of novel perfusion protocols with lower radiation dose deployed to the patient.

Noise analysis in outdoor dynamic speckle measurement.

The dynamic speckle method (DSM) is an effective tool for the estimation of speed of processes. The speed distribution is encoded in a map built by statistical pointwise processing of time-correlated speckle patterns. For industrial inspection, the outdoor noisy measurement is required. The paper analyzes the efficiency of the DSM in the presence of environmental noise as phase fluctuations due to the lack of vibration isolation and shot noise due to ambient light. The usage of normalized estimates for the case of non-uniform laser illumination is studied. The feasibility of the outdoor measurement has been proven by numerical simulations of noisy image capture and real experiments with test objects. Good agreement has been demonstrated in both the simulation and experiment between the ground truth map and the maps extracted from noisy data.

Deep neural network heatmaps capture Alzheimer’s disease patterns reported in a large meta-analysis of neuroimaging studies

Deep neural networks currently provide the most advanced and accurate machine learning models to distinguish between structural MRI scans of subjects with Alzheimer’s disease and healthy controls. Unfortunately, the subtle brain alterations captured by these models are difficult to interpret because of the complexity of these multi-layer and non-linear models. Several heatmap methods have been proposed to address this issue and analyze the imaging patterns extracted from the deep neural networks, but no quantitative comparison between these methods has been carried out so far. In this work, we explore these questions by deriving heatmaps from Convolutional Neural Networks (CNN) trained using T1 MRI scans of the ADNI data set and by comparing these heatmaps with brain maps corresponding to Support Vector Machine (SVM) activation patterns. Three prominent heatmap methods are studied: Layer-wise Relevance Propagation (LRP), Integrated Gradients (IG), and Guided Grad-CAM (GGC). Contrary to prior studies where the quality of heatmaps was visually or qualitatively assessed, we obtained precise quantitative measures by computing overlap with a ground-truth map from a large meta-analysis that combined 77 voxel-based morphometry (VBM) studies independently from ADNI. Our results indicate that all three heatmap methods were able to capture brain regions covering the meta-analysis map and achieved better results than SVM activation patterns. Among them, IG produced the heatmaps with the best overlap with the independent meta-analysis.

Periodic Photobleaching with Structured Illumination for Diffusion Imaging.

The use of periodically structured illumination coupled with spatial Fourier-transform fluorescence recovery after photobleaching (FT-FRAP) was shown to support diffusivity mapping within segmented domains of arbitrary shape. Periodic "comb-bleach" patterning of the excitation beam during photobleaching encoded spatial maps of diffusion onto harmonic peaks in the spatial Fourier transform. Diffusion manifests as a simple exponential decay of a given harmonic, improving the signal to noise ratio and simplifying mathematical analysis. Image segmentation prior to Fourier transformation was shown to support pooling for signal to noise enhancement for regions of arbitrary shape expected to exhibit similar diffusivity within a domain. Following proof-of-concept analyses based on simulations with known ground-truth maps, diffusion imaging by FT-FRAP was used to map spatially-resolved diffusion differences within phase-separated domains of model amorphous solid dispersion spin-cast thin films. Notably, multi-harmonic analysis by FT-FRAP was able to definitively discriminate and quantify the roles of internal diffusion and exchange to higher mobility interfacial layers in modeling the recovery kinetics within thin amorphous/amorphous phase-separated domains, with interfacial diffusion playing a critical role in recovery. These results have direct implications for the design of amorphous systems for stable storage and efficacious delivery of therapeutic molecules.

The quantification of IntraVoxel incoherent motion – MRI maps cannot preserve texture information: An evaluation based on simulated and in-vivo images

BackgroundRadiomics can be applied on parametric maps obtained from IntraVoxel Incoherent Motion (IVIM) MRI to characterize heterogeneity in diffusion and perfusion tissue properties. The purpose of this work is to assess the accuracy and reproducibility of radiomic features computed from IVIM maps using different fitting methods. Methods200 digitally simulated IVIM-MRI images with various SNR containing different combinations of texture patterns were generated from ground truth maps of true diffusion D, pseudo-diffusion D* and perfusion fraction f. Four different methods (segmented least-square LSQ, Bayesian, supervised and unsupervised deep learning DL) were adopted to quantify IVIM maps from simulations and from two real images of liver tumor. Radiomic features were computed from ground truth and estimated maps. Accuracy and reproducibility among quantification methods were assessed. ResultsAlmost 50% of radiomic features computed from D maps using DL approaches, 36% using Bayes and 27% using LSQ presented errors lower than 50%. Radiomic features from f and D* maps were accurate only if computed using DL methods from histogram. High reproducibility (ICC>0.8) was found only for D maps among DL and Bayes methods, whereas features from f and D* maps were less reproducible, with LSQ approach in lower agreement with the others. ConclusionsTexture patterns were preserved and correctly estimated only on D maps, except for LSQ approach. We suggest limiting radiomic analysis only to histogram and some texture features from D maps, to histogram features from f maps, and to avoid it on D* maps.

Fast and accurate T2 mapping using Bloch simulations and low-rank plus sparse matrix decomposition

PurposeMRI's T2 relaxation time is one of the key contrast mechanisms for clinical diagnosis and prognosis of pathologies. Mapping this relaxation time, however, involves extensive scan times, which are needed to collect quantitative data, thereby impeding its integration into clinical routine. This study employs a low-rank plus sparse (L + S) signal decomposition approach in order to reconstruct accurate T2-maps from highly undersampled multi-echo spin-echo (MESE) MRI data. MethodsTwo new algorithms are presented: the first uses standard L + S approach, where both L and S are iteratively updated. The second technique, dubbed SPArse and fixed RanK (SPARK), uses a fixed-rank L, under the assumption that most MESE information is found in the L component and that this rank can be pre-calculated. The utility of these new techniques is demonstrated on in vivo brain and calf data at x2 to x6 acceleration factors. ResultsAccelerated T2 maps showed improved accuracy compared to fully sampled ground truth maps, when using L + S and SPARK techniques vis-à-vis standard GRAPPA acceleration. ConclusionSPARK provides accurate T2 maps with increased robustness to the selection of reconstruction parameters making it suitable to a wide range of applications and facilitating the use of quantitative T2 information in clinical settings.