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High-density 3D mapping

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https://www.readbyqxmd.com/read/29600788/transient-rotor-activity-during-prolonged-3-dimensional-phase-mapping-in-human-persistent-atrial-fibrillation
#1
Bhupesh Pathik, Jonathan M Kalman, Tomos Walters, Pawel Kuklik, Jichao Zhao, Andrew Madry, Sandeep Prabhu, Chrishan Nalliah, Peter Kistler, Geoffrey Lee
OBJECTIVES: This study sought to validate a 3-dimensional (3D) phase mapping system and determine the distribution of dominant propagation patterns in persistent atrial fibrillation (AF). BACKGROUND: Currently available systems display phase as simplified 2-dimensional maps. We developed a novel 3D phase mapping system that uses the 3D location of basket catheter electrodes and the patient's 3D left atrial surface geometry to interpolate phase and create a 3D representation of phase progression...
January 2018: JACC. Clinical Electrophysiology
https://www.readbyqxmd.com/read/29593553/high-resolution-x-ray-tomography-a-3d-exploration-into-the-skeletal-architecture-in-mouse-models-submitted-to-microgravity-constraints
#2
REVIEW
Alessandra Giuliani, Serena Mazzoni, Alessandra Ruggiu, Barbara Canciani, Ranieri Cancedda, Sara Tavella
Bone remodeling process consists in a slow building phase and in faster resorption with the objective to maintain a functional skeleton locomotion to counteract the Earth gravity. Thus, during spaceflights, the skeleton does not act against gravity, with a rapid decrease of bone mass and density, favoring bone fracture. Several studies approached the problem by imaging the bone architecture and density of cosmonauts returned by the different spaceflights. However, the weaknesses of the previously reported studies was two-fold: on the one hand the research suffered the small statistical sample size of almost all human spaceflight studies, on the other the results were not fully reliable, mainly due to the fact that the observed bone structures were small compared with the spatial resolution of the available imaging devices...
2018: Frontiers in Physiology
https://www.readbyqxmd.com/read/29579548/likelihood-based-structural-analysis-of-electron-microscopy-images
#3
REVIEW
Pilar Cossio, Gerhard Hummer
Likelihood-based analysis of single-particle electron microscopy images has contributed much to the recent improvements in resolution. By treating particle orientations and classes probabilistically, uncertainties in the reconstruction process are explicitly accounted for, and the risk of bias towards the initial model is diminished. As a result, the quality and reliability of the reconstructions have greatly improved at manageable computational cost. Likelihood-based analysis of electron microscopy images also offers a route to direct coordinate refinement for dynamic systems, as an alternative to 3D density reconstruction...
March 23, 2018: Current Opinion in Structural Biology
https://www.readbyqxmd.com/read/29556905/automatic-bladder-segmentation-from-ct-images-using-deep-cnn-and-3d-fully-connected-crf-rnn
#4
Xuanang Xu, Fugen Zhou, Bo Liu
PURPOSE: Automatic approach for bladder segmentation from computed tomography (CT) images is highly desirable in clinical practice. It is a challenging task since the bladder usually suffers large variations of appearance and low soft-tissue contrast in CT images. In this study, we present a deep learning-based approach which involves a convolutional neural network (CNN) and a 3D fully connected conditional random fields recurrent neural network (CRF-RNN) to perform accurate bladder segmentation...
March 19, 2018: International Journal of Computer Assisted Radiology and Surgery
https://www.readbyqxmd.com/read/29517831/variable-flip-angle-3d-ultrashort-echo-time-ute-t-1-mapping-of-mouse-lung-a-repeatability-assessment
#5
Daniel F Alamidi, Amir Smailagic, Abdel W Bidar, Nicole S Parker, Marita Olsson, Paul D Hockings, Kerstin M Lagerstrand, Lars E Olsson
BACKGROUND: Lung T1 is a potential translational biomarker of lung disease. The precision and repeatability of variable flip angle (VFA) T1 mapping using modern 3D ultrashort echo time (UTE) imaging of the whole lung needs to be established before it can be used to assess response to disease and therapy. PURPOSE: To evaluate the feasibility of regional lung T1 quantification with VFA 3D-UTE and to investigate long- and short-term T1 repeatability in the lungs of naive mice...
March 8, 2018: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/29468699/early-diabetic-retinopathy-diagnosis-based-on-local-retinal-blood-vessels-analysis-in-optical-coherence-tomography-angiography-octa-images
#6
Nabila Eladawi, Mohammed Elmogy, Fahmi Khalifa, Mohammed Ghazal, Nicola Ghazi, Ahmed Aboelfetouh, Alaa Riad, Harpal Sandhu, Shlomit Schaal, Ayman El-Baz
PURPOSE: This paper introduces a new computer-aided diagnosis (CAD) system for detecting early-stage diabetic retinopathy (DR) using optical coherence tomography angiography (OCTA) images. METHODS: The proposed DR-CAD system is based on the analysis of new local features that describe both the appearance and retinal structure in OCTA images. It starts with a new segmentation approach that has the ability to extract the blood vessels from superficial and deep retinal OCTA maps...
February 22, 2018: Medical Physics
https://www.readbyqxmd.com/read/29457316/assessment-of-pulmonary-structure-function-relationships-in-young-children-and-adolescents-with-cystic-fibrosis-by-multivolume-proton-mri-and-ct
#7
Francesca Pennati, David J Roach, John P Clancy, Alan S Brody, Robert J Fleck, Andrea Aliverti, Jason C Woods
BACKGROUND: Lung disease is the most frequent cause of morbidity and mortality in patients with cystic fibrosis (CF), and there is a shortage of sensitive biomarkers able to regionally monitor disease progression and to assess early responses to therapy. PURPOSE: To determine the feasibility of noncontrast-enhanced multivolume MRI, which assesses intensity changes between expiratory and inspiratory breath-hold images, to detect and quantify regional ventilation abnormalities in CF lung disease, with a focus on the structure-function relationship...
February 19, 2018: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/29364223/application-of-high-speed-super-resolution-speed-microscopy-in-live-primary-cilium
#8
Andrew Ruba, Wangxi Luo, Weidong Yang
The primary cilium is a microtubule-based protrusion on the surface of many eukaryotic cells and contains a unique complement of proteins that function critically in cell motility and signaling. Since cilia are incapable of synthesizing their own protein, nearly 200 unique ciliary proteins need to be trafficked between the cytosol and primary cilia. However, it is still a technical challenge to map three-dimensional (3D) locations of transport pathways for these proteins in live primary cilia due to the limitations of currently existing techniques...
January 16, 2018: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/29344776/dawning-of-a-new-era-in-trp-channel-structural-biology-by-cryo-electron-microscopy
#9
REVIEW
M Gregor Madej, Christine M Ziegler
Cryo-electron microscopy (cryo-EM) permits the determination of atomic protein structures by averaging large numbers of individual projection images recorded at cryogenic temperatures-a method termed single-particle analysis. The cryo-preservation traps proteins within a thin glass-like ice layer, making literally a freeze image of proteins in solution. Projections of randomly adopted orientations are merged to reconstruct a 3D density map. While atomic resolution for highly symmetric viruses was achieved already in 2009, the development of new sensitive and fast electron detectors has enabled cryo-EM for smaller and asymmetrical proteins including fragile membrane proteins...
January 17, 2018: Pflügers Archiv: European Journal of Physiology
https://www.readbyqxmd.com/read/29328079/high-resolution-coherent-x-ray-diffraction-imaging-of-metal-coated-polymer-microspheres
#10
Eirik T B Skjønsfjell, David Kleiven, Nilesh Patil, Yuriy Chushkin, Federico Zontone, Alain Gibaud, Dag W Breiby
Coherent x-ray diffraction imaging (CXDI) is becoming an important 3D quantitative microscopy technique, allowing structural investigation of a wide range of delicate mesoscale samples that cannot be imaged by other techniques like electron microscopy. Here we report high-resolution 3D CXDI performed on spherical microcomposites consisting of a polymer core coated with a triple layer of nickel-gold-silica. These composites are of high interest to the microelectronics industry, where they are applied in conducting adhesives as fine-pitch electrical contacts-which requires an exceptional degree of uniformity and reproducibility...
January 1, 2018: Journal of the Optical Society of America. A, Optics, Image Science, and Vision
https://www.readbyqxmd.com/read/29196268/developing-3d-microscopy-with-clarity-on-human-brain-tissue-towards-a-tool-for-informing-and-validating-mri-based-histology
#11
Markus Morawski, Evgeniya Kirilina, Nico Scherf, Carsten Jäger, Katja Reimann, Robert Trampel, Filippos Gavriilidis, Stefan Geyer, Bernd Biedermann, Thomas Arendt, Nikolaus Weiskopf
Recent breakthroughs in magnetic resonance imaging (MRI) enabled quantitative relaxometry and diffusion-weighted imaging with sub-millimeter resolution. Combined with biophysical models of MR contrast the emerging methods promise in vivo mapping of cyto- and myelo-architectonics, i.e., in vivo histology using MRI (hMRI) in humans. The hMRI methods require histological reference data for model building and validation. This is currently provided by MRI on post mortem human brain tissue in combination with classical histology on sections...
November 28, 2017: NeuroImage
https://www.readbyqxmd.com/read/29169344/genome-wide-association-mapping-of-black-point-reaction-in-common-wheat-triticum-aestivum-l
#12
Jindong Liu, Zhonghu He, Awais Rasheed, Weie Wen, Jun Yan, Pingzhi Zhang, Yingxiu Wan, Yong Zhang, Chaojie Xie, Xianchun Xia
BACKGROUND: Black point is a serious threat to wheat production and can be managed by host resistance. Marker-assisted selection (MAS) has the potential to accelerate genetic improvement of black point resistance in wheat breeding. We performed a genome-wide association study (GWAS) using the high-density wheat 90 K and 660 K single nucleotide polymorphism (SNP) assays to better understand the genetic basis of black point resistance and identify associated molecular markers. RESULTS: Black point reactions were evaluated in 166 elite wheat cultivars in five environments...
November 23, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/29163559/genome-wide-association-study-of-calcium-accumulation-in-grains-of-european-wheat-cultivars
#13
Dalia Z Alomari, Kai Eggert, Nicolaus von Wirén, Klaus Pillen, Marion S Röder
Mineral concentrations in cereals are important for human health, especially for people who depend mainly on consuming cereal diet. In this study, we carried out a genome-wide association study (GWAS) of calcium concentrations in wheat ( Triticum aestivum L.) grains using a European wheat diversity panel of 353 varieties [339 winter wheat (WW) plus 14 of spring wheat (SW)] and phenotypic data based on two field seasons. High genotyping densities of single-nucleotide polymorphism (SNP) markers were obtained from the application of the 90k iSELECT ILLUMINA chip and a 35k Affymetrix chip...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29067730/simultaneous-qsm-and-metabolic-imaging-of-the-brain-using-spice
#14
Xi Peng, Fan Lam, Yudu Li, Bryan Clifford, Zhi-Pei Liang
PURPOSE: To map brain metabolites and tissue magnetic susceptibility simultaneously using a single three-dimensional1 H-MRSI acquisition without water suppression. METHODS: The proposed technique builds on a subspace imaging method called spectroscopic imaging by exploiting spatiospectral correlation (SPICE), which enables ultrashort echo time (TE)/short pulse repetition time (TR) acquisitions for1 H-MRSI without water suppression. This data acquisition scheme simultaneously captures both the spectral information of brain metabolites and the phase information of the water signals that is directly related to tissue magnetic susceptibility variations...
January 2018: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/29043295/three-dimensional-supercritical-resolved-light-induced-magnetic-holography
#15
Chenglong Hao, Zhongquan Nie, Huapeng Ye, Hao Li, Yang Luo, Rui Feng, Xia Yu, Feng Wen, Ying Zhang, Changyuan Yu, Jinghua Teng, Boris Luk'yanchuk, Cheng-Wei Qiu
In the era of big data, there exists a growing gap between data generated and storage capacity using two-dimensional (2D) magnetic storage technologies (for example, hard disk drives), because they have reached their performance saturation. 3D volumetric all-optical magnetic holography is emerging rapidly as a promising road map to realizing high-density capacity for its fast magnetization control and subwavelength magnetization volume. However, most of the reported light-induced magnetization confronts the problems of impurely longitudinal magnetization, diffraction-limited spot, and uncontrollable magnetization reversal...
October 2017: Science Advances
https://www.readbyqxmd.com/read/29024200/novel-automated-point-collection-software-facilitates-rapid-high-density-electroanatomical-mapping-with-multiple-catheter-types
#16
Leon M Ptaszek, Boyce Moon, Guy Rozen, Srijoy Mahapatra, Moussa Mansour
INTRODUCTION: Manual, point-by-point electroanatomical mapping requires the operator to directly evaluate each point during map construction. Consequently, point collection can be a slow process. An automated 3D mapping system was developed with the goal of improving key mapping metrics, including map completion time and point density. METHODS: Automated 3D mapping software that includes morphology and cycle length discrimination functions for surface and intracardiac electrograms was developed...
January 2018: Journal of Cardiovascular Electrophysiology
https://www.readbyqxmd.com/read/28889004/quantitative-vascular-neuroimaging-of-the-rat-brain-using-superparamagnetic-nanoparticles-new-insights-on-vascular-organization-and-brain-function
#17
Codi A Gharagouzloo, Liam Timms, Ju Qiao, Zihang Fang, Joseph Nneji, Aniket Pandya, Praveen Kulkarni, Anne L van de Ven, Craig Ferris, Srinivas Sridhar
A method called Quantitative Ultra-Short Time-to-Echo Contrast Enhanced (QUTE-CE) Magnetic Resonance Imaging (MRI) which utilizes superparamagnetic iron oxide nanoparticles (SPIONs) as a contrast agent to yield positive contrast angiograms with high clarity and definition is applied to the whole live rat brain. QUTE-CE MRI intensity data are particularly well suited for measuring quantitative cerebral blood volume (qCBV). A global map of qCBV in the awake resting-state with unprecedented detail was created via application of a 3D MRI rat brain atlas with 173 segmented and annotated brain areas...
December 2017: NeuroImage
https://www.readbyqxmd.com/read/28885152/multimodal-breast-parenchymal-patterns-correlation-using-a-patient-specific-biomechanical-model
#18
Eloy Garcia, Yago Diez, Oliver Diaz, Xavier Llado, Albert Gubern-Merida, Robert Marti, Joan Marti, Arnau Oliver
In this paper we aim to produce a realistic 2D projection of the breast parenchymal distribution from a 3D breast magnetic resonance image (MRI). To evaluate the accuracy of our simulation, we compare our results with the local breast density (i.e. density map) obtained from the complementary fullfield digital mammogram. To achieve this goal, we have developed a fully automatic framework which registers MRI volumes to X-ray mammograms using a subject-specific biomechanical model of the breast. The optimization step modifies the position, orientation and elastic parameters of the breast model to perform the alignment between the images...
September 7, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28842384/3d-mr-fingerprinting-with-accelerated-stack-of-spirals-and-hybrid-sliding-window-and-grappa-reconstruction
#19
Congyu Liao, Berkin Bilgic, Mary Kate Manhard, Bo Zhao, Xiaozhi Cao, Jianhui Zhong, Lawrence L Wald, Kawin Setsompop
PURPOSE: Whole-brain high-resolution quantitative imaging is extremely encoding intensive, and its rapid and robust acquisition remains a challenge. Here we present a 3D MR fingerprinting (MRF) acquisition with a hybrid sliding-window (SW) and GRAPPA reconstruction strategy to obtain high-resolution T1 , T2 and proton density (PD) maps with whole brain coverage in a clinically feasible timeframe. METHODS: 3D MRF data were acquired using a highly under-sampled stack-of-spirals trajectory with a steady-state precession (FISP) sequence...
November 15, 2017: NeuroImage
https://www.readbyqxmd.com/read/28833436/fast-3d-magnetic-resonance-fingerprinting-for-a-whole-brain-coverage
#20
Dan Ma, Yun Jiang, Yong Chen, Debra McGivney, Bhairav Mehta, Vikas Gulani, Mark Griswold
PURPOSE: The purpose of this study was to accelerate the acquisition and reconstruction time of 3D magnetic resonance fingerprinting scans. METHODS: A 3D magnetic resonance fingerprinting scan was accelerated by using a single-shot spiral trajectory with an undersampling factor of 48 in the x-y plane, and an interleaved sampling pattern with an undersampling factor of 3 through plane. Further acceleration came from reducing the waiting time between neighboring partitions...
August 22, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
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