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https://www.readbyqxmd.com/read/28809697/geometric-and-photometric-consistency-in-a-mixed-video-and-galvanoscopic-scanning-laser-projection-mapping-system
#1
Petar Pjanic, Simon Willi, Anselm Grundhofer
We present a geometric calibration method to accurately register a galvanoscopic scanning laser projection system (GLP) based on 2D vector input data onto an arbitrarily complex 3D-shaped projection surface. This method allows for accurate merging of 3D vertex data displayed on the laser projector with geometrically calibrated standard rasterization-based video projectors that are registered to the same geometry. Because laser projectors send out a laser light beam via galvanoscopic mirrors, a standard pinhole model calibration procedure that is normally used for pixel raster displays projecting structured light patterns, such as Gray codes, cannot be carried out directly with sufficient accuracy as the rays do not converge into a single point...
August 10, 2017: IEEE Transactions on Visualization and Computer Graphics
https://www.readbyqxmd.com/read/28808033/multiplex-quantitative-cellular-analysis-in-large-tissue-volumes-with-clearing-enhanced-3d-microscopy-ce3d
#2
Weizhe Li, Ronald N Germain, Michael Y Gerner
Organ homeostasis, cellular differentiation, signal relay, and in situ function all depend on the spatial organization of cells in complex tissues. For this reason, comprehensive, high-resolution mapping of cell positioning, phenotypic identity, and functional state in the context of macroscale tissue structure is critical to a deeper understanding of diverse biological processes. Here we report an easy to use method, clearing-enhanced 3D (Ce3D), which generates excellent tissue transparency for most organs, preserves cellular morphology and protein fluorescence, and is robustly compatible with antibody-based immunolabeling...
August 14, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28805850/dispersible-oxygen-microsensors-map-oxygen-gradients-in-three-dimensional-cell-cultures
#3
Sasha Cai Lesher-Pérez, Ge-Ah Kim, Chuan-Hsien Kuo, Brendan M Leung, Sanda Mong, Taisuke Kojima, Christopher Moraes, M D Thouless, Gary D Luker, Shuichi Takayama
Phase fluorimetry, unlike the more commonly used intensity-based measurement, is not affected by differences in light paths from culture vessels or by optical attenuation through dense 3D cell cultures and hydrogels thereby minimizing dependence on signal intensity for accurate measurements. This work describes the use of phase fluorimetry on oxygen-sensor microbeads to perform oxygen measurements in different microtissue culture environments. In one example, cell spheroids were observed to deplete oxygen from the cell-culture medium filling the bottom of conventional microwells within minutes, whereas oxygen concentrations remained close to ambient levels for several days in hanging-drop cultures...
August 14, 2017: Biomaterials Science
https://www.readbyqxmd.com/read/28804569/dynamic-registration-for-gigapixel-serial-whole-slide-images
#4
Blair J Rossetti, Fusheng Wang, Pengyue Zhang, George Teodoro, Daniel J Brat, Jun Kong
High-throughput serial histology imaging provides a new avenue for the routine study of micro-anatomical structures in a 3D space. However, the emergence of serial whole slide imaging poses a new registration challenge, as the gigapixel image size precludes the direct application of conventional registration techniques. In this paper, we develop a three-stage registration with multi-resolution mapping and propagation method to dynamically produce registered subvolumes from serial whole slide images. We validate our algorithm with gigapixel images of serial brain tumor sections and synthetic image volumes...
April 2017: Proceedings of the IEEE International Symposium on Biomedical Imaging: from Nano to Macro
https://www.readbyqxmd.com/read/28803112/in-vivo-documentation-of-shape-and-position-changes-of-mri-visible-mesh-placed-in-rectovaginal-septum
#5
Urbankova Iva, Sindhwani Nikhil, Callewaert Geertje, Turri Alice, Rinkijevic Rita, Hympanova Lucie, Feola Andrew, Deprest Jan
BACKGROUND AND OBJECTIVE: Large deformations in synthetic meshes used in pelvic organ prolapse surgery may lead to suboptimal support for the underlying tissue, graft-related complications as well as recurrence. Our aim was to quantify in vivo longitudinal changes in mesh shape and geometry in a large animal model. We compare two commonly used mesh shapes, armed and flat, that are differently affixed. The secondary outcomes were active and passive biomechanical properties. METHODS: A total of 18 animals were used...
August 5, 2017: Journal of the Mechanical Behavior of Biomedical Materials
https://www.readbyqxmd.com/read/28801150/three-dimensional-wound-maping-software-compared-to-expert-opinion-in-determining-wound-area
#6
E Farrar, O Pujji, S Jeffery
INTRODUCTION: New technologies in the field of burn wound and scar assessment are continually being evaluated. Accurate estimation of total body surface area (TBSA) burn wound is of paramount importance in fluid resuscitation to prevent complications which are associated with morbidity and mortality. Estimating the TBSA is performed by a multitude of different methods, however a gold standard would be ideal. The aim of this study was to compare the estimation of burned TBSA% between 3D photography by Panasonic FZ-M1 Toughpad in conjunction with WoundCare Lite software and expert opinion volunteered by burns doctors...
August 8, 2017: Burns: Journal of the International Society for Burn Injuries
https://www.readbyqxmd.com/read/28797690/stem-cells-distribution-cellular-proliferation-and-migration-in-the-adult-austrolebias-charrua-brain
#7
Maximiliano Torres-Pérez, Juan Carlos Rosillo, Ines Berrosteguieta, Silvia Olivera-Bravo, Gabriela Casanova, José Manuel García-Verdugo, Anabel Sonia Fernández
Our previous studies demonstrated that Austrolebias charrua annual fish is an excellent model to study adult brain cell proliferation and neurogenesis due to the presence of active and fast neurogenesis in several regions during its short lifespan. Our main goal was to identify and localize the cells that compose the neurogenic areas throughout the Austrolebias brain. To do this, we used two thymidine halogenated analogs to detect cell proliferation at different survival times: 5-chloro-2́-deoxyuridine (CldU) at 1 day and 5-iodo-2́-deoxyuridine (IdU) at 30 days...
August 7, 2017: Brain Research
https://www.readbyqxmd.com/read/28795512/single-particle-cryo-em-improved-ab-initio-3d-reconstruction-with-simple-prime
#8
Cyril F Reboul, Michael Eager, Dominika Elmlund, Hans Elmlund
Cryogenic electron microscopy (cryo-EM) and single-particle analysis now enables the determination of high-resolution structures of macromolecular assemblies that have resisted X-ray crystallography and other approaches. We developed the SIMPLE open-source image-processing suite for analysing cryo-EM images of single-particles. A core component of SIMPLE is the probabilistic PRIME algorithm for identifying clusters of images in 2D and determine relative orientations of single-particle projections in 3D. Here we extend our previous work on PRIME and introduce new stochastic optimisation algorithms that improve the robustness of the approach...
August 10, 2017: Protein Science: a Publication of the Protein Society
https://www.readbyqxmd.com/read/28795419/simultaneous-mr-thermometry-and-acoustic-radiation-force-imaging-using-interleaved-acquisition
#9
Joshua T de Bever, Henrik Odéen, Lorne W Hofstetter, Dennis L Parker
PURPOSE: A novel and practical method for simultaneously performing MR acoustic radiation force imaging (ARFI) and proton resonance frequency (PRF)-shift thermometry has been developed and tested. This could be an important tool for evaluating the success of MR-guided focused ultrasound procedures for which MR-thermometry measures temperature and thermal dose and MR-ARFI detects changes in tissue mechanical properties. METHODS: MR imaging was performed using a gradient recalled echo segmented echo-planar imaging pulse sequence with bipolar motion encoding gradients (MEG)...
August 10, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28795372/development-of-a-pharmacophore-for-cruzain-using-oxadiazoles-as-virtual-molecular-probes-quantitative-structure-activity-relationship-studies
#10
Anacleto S de Souza, Marcelo T de Oliveira, Adriano D Andricopulo
Chagas's is a neglected tropical disease caused by the protozoan parasite Trypanosoma cruzi. According to the World Health Organization, 7 million people are infected worldwide leading to 7000 deaths per year. Drugs available, nifurtimox and benzimidazole, are limited due to low efficacy and high toxicity. As a validated target, cruzain represents a major front in drug discovery attempts for Chagas disease. Herein, we describe the development of 2D QSAR ([Formula: see text] = 0.81) and a 3D-QSAR-based pharmacophore ([Formula: see text] = 0...
August 9, 2017: Journal of Computer-aided Molecular Design
https://www.readbyqxmd.com/read/28792103/progression-of-regional-atrophy-in-the-left-hemisphere-contributes-to-clinical-and-cognitive-deterioration-in-multiple-sclerosis-a-5-year-study
#11
Paolo Preziosa, Elisabetta Pagani, Sarlota Mesaros, Gianna C Riccitelli, Jelena Dackovic, Jelena Drulovic, Massimo Filippi, Maria A Rocca
In this longitudinal study, we investigated the regional patterns of focal lesions accumulation, and gray (GM) and white matter (WM) atrophy progression over a five-year follow-up (FU) in multiple sclerosis (MS) patients and their association with clinical and cognitive deterioration. Neurological, neuropsychological and brain MRI (dual-echo and 3D T1-weighted sequences) assessments were prospectively performed at baseline (T0) and after a median FU of 4.9 years from 66 MS patients (including relapse-onset and primary progressive MS) and 16 matched controls...
August 9, 2017: Human Brain Mapping
https://www.readbyqxmd.com/read/28792033/monolayer-to-thin-film-transition-in-supramolecular-assemblies-the-role-of-topological-protection
#12
Zachary P L Laker, Alexander J Marsden, Oreste De Luca, Ada Della Pia, Luís M A Perdigão, Giovanni Costantini, Neil R Wilson
The ability to control the transition from a two-dimensional (2D) monolayer to the three-dimensional (3D) molecular structure in the growth of organic layers on surfaces is essential for the production of functional thin films and devices. This has, however, proved to be extremely challenging, starting from the currently limited ability to attain a molecular scale characterization of this transition. Here, through innovative application of low-dose electron diffraction and aberration-corrected transmission electron microscopy (acTEM), combined with scanning tunneling microscopy (STM), we reveal the structural changes occurring as film thickness is increased from monolayer to tens of nanometers for supramolecular assembly of two prototypical benzenecarboxylic acids - terephthalic acid (TPA) and trimesic acid (TMA) - on graphene...
August 9, 2017: Nanoscale
https://www.readbyqxmd.com/read/28782513/the-effect-of-age-on-the-response-of-retinal-capillary-filling-to-changes-in-intraocular-pressure-measured-by-optical-coherence-tomography-angiography
#13
Xiaoyun Jiang, Elaine Johnson, William Cepurna, Diana Lozano, Shaojie Men, Ruikang K Wang, John Morrison
PURPOSE: To compare the effect of elevated intraocular pressure (IOP) on retinal capillary filling in elderly vs adult rats using optical coherence tomography angiography (OCTA). METHODS: The IOP of elderly (24-month-old, N=12) and adult (6-8month-old, N=10) Brown Norway rats was elevated in 10mmHg increments from 10 to 100mmHg. At each IOP level, 3D OCT data were captured using an optical microangiography (OMAG) scanning protocol and then post-processed to obtain both structural and vascular images...
August 3, 2017: Microvascular Research
https://www.readbyqxmd.com/read/28782187/sensitive-three-dimensional-ultrasound-assessment-of-carotid-atherosclerosis-by-weighted-average-of-local-vessel-wall-and-plaque-thickness-change
#14
Jieyu Cheng, Eranga Ukwatta, Shadi Shavakh, Tommy W S Chow, Grace Parraga, J David Spence, Bernard Chiu
PURPOSE: Vitamin B deficiency has been identified as a risk factor for vascular events. However, the reduction of vascular events was not shown in large randomized controlled trials evaluating B-Vitamin therapy. There is an important requirement to develop sensitive biomarkers to be used as efficacy targets for B-Vitamin therapy as well as other dietary treatments and lifestyle regimes that are being developed. Carotid vessel-wall-plus-plaque thickness change (VWT-Change) measured from 3D ultrasound has been shown to be sensitive to atorvastatin therapies in previous studies...
August 7, 2017: Medical Physics
https://www.readbyqxmd.com/read/28777496/t2-mapping-with-magnetization-prepared-3d-tse-based-on-a-modified-bir-4%C3%A2-t2-preparation
#15
Dominik Weidlich, Sarah Schlaeger, Hendrik Kooijman, Peter Börnert, Jan S Kirschke, Ernst J Rummeny, Axel Haase, Dimitrios C Karampinos
The purpose of this work was to investigate the performance of the modified BIR-4 T2 preparation for T2 mapping and propose a method to remove T2 quantification errors in the presence of large B1 and B0 offsets. The theoretical investigation of the magnetization evolution during the T2 preparation in the presence of B1 and B0 offsets showed deviations from a mono-exponential T2 decay (two parameter fit). A three parameter fit was used to improve T2 accuracy. Furthermore, a two parameter fit with an additional saturation preparation scan was proposed to improve T2 accuracy and precision...
August 4, 2017: NMR in Biomedicine
https://www.readbyqxmd.com/read/28776822/ripple-mapping-initial-multicenter-experience-of-an-intuitive-approach-to-overcoming-the-limitations-of-3d-activation-mapping
#16
Vishal Luther, Nuno Cortez-Dias, Luis Carpinteiro, João de Sousa, Richard Navaratnum Balasubramaniam, Sharad C Agarwal, David Farwell, Solomon Mark Sopher, Girish Babu, Richard Till, Nikki Jones, Stuart Tan, Anthony Chow, Martin Lowe, Jem Lane, Naveen Pappachan, Nick Wf Linton, Prapa Kanagaratnam
BACKGROUND: Ripple Mapping (RM) displays electrograms as moving bars over a 3D surface displaying bipolar voltage, and has shown in a single-center series to be effective for atrial tachycardia (AT) mapping without annotation of local activation time or window-of-interest assignment. We tested the reproducibility of these findings in operators naive to RM, using it for the first time in post ablation AT. METHODS: Maps were collected with multielectrode catheters and CARTO ConfiDENSE...
August 4, 2017: Journal of Cardiovascular Electrophysiology
https://www.readbyqxmd.com/read/28773881/frontal-conversion-and-uniformity-in-3d-printing-by-photopolymerisation
#17
Alessandra Vitale, João T Cabral
We investigate the impact of the non-uniform spatio-temporal conversion, intrinsic to photopolymerisation, in the context of light-driven 3D printing of polymers. The polymerisation kinetics of a series of model acrylate and thiol-ene systems, both neat and doped with a light-absorbing dye, is investigated experimentally and analysed according to a descriptive coarse-grained model for photopolymerisation. In particular, we focus on the relative kinetics of polymerisation with those of 3D printing, by comparing the evolution of the position of the conversion profile (zf) to the sequential displacement of the object stage (∆z)...
September 7, 2016: Materials
https://www.readbyqxmd.com/read/28773852/design-of-decorated-self-assembling-peptide-hydrogels-as-architecture-for-mesenchymal-stem-cells
#18
Annj Zamuner, Marta Cavo, Silvia Scaglione, Grazia Maria Lucia Messina, Teresa Russo, Antonio Gloria, Giovanni Marletta, Monica Dettin
Hydrogels from self-assembling ionic complementary peptides have been receiving a lot of interest from the scientific community as mimetic of the extracellular matrix that can offer three-dimensional supports for cell growth or can become vehicles for the delivery of stem cells, drugs or bioactive proteins. In order to develop a 3D "architecture" for mesenchymal stem cells, we propose the introduction in the hydrogel of conjugates obtained by chemoselective ligation between a ionic-complementary self-assembling peptide (called EAK) and three different bioactive molecules: an adhesive sequence with 4 Glycine-Arginine-Glycine-Aspartic Acid-Serine-Proline (GRGDSP) motifs per chain, an adhesive peptide mapped on h-Vitronectin and the growth factor Insulin-like Growth Factor-1 (IGF-1)...
August 26, 2016: Materials
https://www.readbyqxmd.com/read/28771695/challenges-for-visualizing-three-dimensional-data-in-genomic-browsers
#19
REVIEW
Mike Goodstadt, Marc A Marti-Renom
Genomic interactions reveal the spatial organization of genomes and genomic domains, which is known to play key roles in cell function. Physical proximity can be represented as two-dimensional heat maps or matrices. From these, three-dimensional (3D) conformations of chromatin can be computed revealing coherent structures that highlight the importance of non-sequential relationships across genomic features. Mainstream genomic browsers have been classically developed to display compact, stacked tracks based on a linear, sequential, per-chromosome coordinate system...
August 3, 2017: FEBS Letters
https://www.readbyqxmd.com/read/28771481/quantitative-and-qualitative-estimation-of-atherosclerotic-plaque-burden-in-vivo-at-7t-mri-using-gadospin-f-in-comparison-to-en-face-preparation-evaluated-in-apoe-ko-mice
#20
Caroline Jung, Sabine Christiansen, Michael Gerhard Kaul, Eva Koziolek, Rudolph Reimer, Jörg Heeren, Gerhard Adam, Markus Heine, Harald Ittrich
BACKGROUND: The aim of the study was to quantify atherosclerotic plaque burden by volumetric assessment and T1 relaxivity measurement at 7T MRI using Gadospin F (GDF) in comparison to en face based measurements. METHODS AND RESULTS: 9-weeks old ApoE-/- (n = 5 for each group) and wildtype mice (n = 5) were set on high fat diet (HFD). Progression group received MRI at 9, 13, 17 and 21 weeks after HFD initiation. Regression group was reswitched to chow diet (CD) after 13 weeks HFD and monitored with MRI for 12 weeks...
2017: PloS One
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