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https://www.readbyqxmd.com/read/28328931/x-ray-microtomography-for-ant-taxonomy-an-exploration-and-case-study-with-two-new-terataner-hymenoptera-formicidae-myrmicinae-species-from-madagascar
#1
Francisco Hita Garcia, Georg Fischer, Cong Liu, Tracy L Audisio, Gary D Alpert, Brian L Fisher, Evan P Economo
We explore the potential of x-ray micro computed tomography (μCT) for the field of ant taxonomy by using it to enhance the descriptions of two remarkable new species of the ant genus Terataner: T. balrog sp. n. and T. nymeria sp. n.. We provide an illustrated worker-based species identification key for all species found on Madagascar, as well as detailed taxonomic descriptions, which include diagnoses, discussions, measurements, natural history data, high-quality montage images and distribution maps for both new species...
2017: PloS One
https://www.readbyqxmd.com/read/28328071/investigation-of-c3-s-hydration-mechanism-by-transmission-electron-microscope-tem-with-integrated-super-x-tm-eds-system
#2
Y Sakalli, R Trettin
Tricalciumsilicate (C3 S, Alite) is the major component of the Portland cement clinker. Hydration of Alite is decisive in influencing the properties of the resulting material. This is due to its high content in cement. The mechanism of the hydration of C3 S is very complicated and not yet fully understood. There are different models describing the hydration of C3 S in various ways. In this work for a better understanding of hydration mechanism, the hydrated C3 S was investigated by using the transmission electron microscope (TEM) and for the first time, the samples for the investigations were prepared by using of focused ion beam from sintered pellets of C3 S...
March 22, 2017: Journal of Microscopy
https://www.readbyqxmd.com/read/28323041/quantitative-analyses-of-the-3d-nuclear-landscape-recorded-with-super-resolved-fluorescence-microscopy
#3
Volker J Schmid, Marion Cremer, Thomas Cremer
Recent advancements of super-resolved fluorescence microscopy have revolutionized microscopic studies of cells, including the exceedingly complex structural organization of cell nuclei in space and time. In this paper we describe and discuss tools for (semi-) automated, quantitative 3D analyses of the spatial nuclear organization. These tools allow the quantitative assessment of highly resolved different chromatin compaction levels in individual cell nuclei, which reflect functionally different regions or sub-compartments of the 3D nuclear landscape, and measurements of absolute distances between sites of different chromatin compaction...
March 18, 2017: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/28322583/interplay-between-genetic-and-epigenetic-mechanisms-in-rheumatoid-arthritis
#4
Mojca Frank-Bertoncelj, Kerstin Klein, Steffen Gay
Genetic and environmental factors contribute to the risk for rheumatoid arthritis (RA), with epigenetics serving as a possible interface through which risk factors contribute to RA. High-throughput technologies for interrogating genome and epigenome, and the availability of genetic and epigenetic datasets across a diversity of cell types, enable the identification of candidate causal genetic variants for RA to study their function in core RA processes. To date, RA risk variants were studied in the immune cells but not joint resident cells, for example, synovial fibroblasts...
March 21, 2017: Epigenomics
https://www.readbyqxmd.com/read/28322047/thiol-ene-monolithic-pepsin-microreactor-with-a-3d-printed-interface-for-efficient-uplc-ms-peptide-mapping-analyses
#5
Alexander Jönsson, Rasmus R Svejdal, Nanna B Bøgelund, Tam T T N Nguyen, Henrik Flindt, Jörg P Kutter, Kasper D Rand, Josiane Penelope Lafleur
To improve the sample handling, and reduce cost and preparation time, of peptide mapping LC-MS workflows in protein analytical research, we here investigate the possibility of replacing conventional enzymatic digestion methods with a polymer microfluidic chip-based enzyme reactor. Off-stoichiometric thiol-ene is utilized as both bulk material and as a monolithic stationary phase for immobilization of the proteolytic enzyme pepsin. The digestion efficiency of the, thiol-ene based, immobilized enzym reactor (IMER) is compared to that of a conventional, agarose packed bed, pepsin IMER column commonly used in LC-MS-based protein analyses...
March 21, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28322026/objective-3d-surface-evaluation-of-intracranial-electrophysiologic-correlates-of-cerebral-glucose-metabolic-abnormalities-in-children-with-focal-epilepsy
#6
Jeong-Won Jeong, Eishi Asano, Vinod Kumar Pilli, Yasuo Nakai, Harry T Chugani, Csaba Juhász
To determine the spatial relationship between 2-deoxy-2[(18) F]fluoro-D-glucose (FDG) metabolic and intracranial electrophysiological abnormalities in children undergoing two-stage epilepsy surgery, statistical parametric mapping (SPM) was used to correlate hypo- and hypermetabolic cortical regions with ictal and interictal electrocorticography (ECoG) changes mapped onto the brain surface. Preoperative FDG-PET scans of 37 children with intractable epilepsy (31 with non-localizing MRI) were compared with age-matched pseudo-normal pediatric control PET data...
March 21, 2017: Human Brain Mapping
https://www.readbyqxmd.com/read/28320939/decoupling-local-mechanics-from-large-scale-structure-in-modular-metamaterials
#7
Nan Yang, Jesse L Silverberg
A defining feature of mechanical metamaterials is that their properties are determined by the organization of internal structure instead of the raw fabrication materials. This shift of attention to engineering internal degrees of freedom has coaxed relatively simple materials into exhibiting a wide range of remarkable mechanical properties. For practical applications to be realized, however, this nascent understanding of metamaterial design must be translated into a capacity for engineering large-scale structures with prescribed mechanical functionality...
March 20, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28317116/anatomical-segmentation-of-the-human-medial-prefrontal-cortex
#8
M Córcoles-Parada, Ncj Müller, M Ubero, V M Serrano-Del-Pueblo, F Mansilla, P Marcos-Rabal, E Artacho-Pérula, M Dresler, R Insausti, G Fernández, M Muñoz-López
The medial prefrontal areas 32, 24, 14, and 25 (mPFC) form part of the limbic memory system, but little is known about their functional specialization in humans. To add anatomical precision to structural and functional MRI data, we aimed to identify these mPFC subareas in histological preparations of human brain tissue, determine sulci most consistently related with mPFC areal boundaries, and use these sulci to delineate mPFC areas in MRIs. To achieve this, we obtained 3D MRI data from 11 ex vivo hemispheres and processed them for cyto- and myelo-architectonic analysis...
March 20, 2017: Journal of Comparative Neurology
https://www.readbyqxmd.com/read/28316236/webmolcs-a-web-based-interface-for-visualizing-molecules-in-3d-chemical-spaces
#9
Mahendra Awale, Daniel Probst, Jean-Louis Reymond
The concept of chemical space provides a convenient framework to analyze large collections of molecules by placing them in property spaces where distances represent similarities. Here we report webMolCS, a new type of web-based interface visualizing up to 5000 user-defined molecules in six different 3D chemical spaces obtained by principal component analysis or similarity mapping of multi-dimensional property spaces describing composition (MQN: 42D Molecular Quantum Numbers, SMIfp: 34D SMILES fingerprint), shapes and pharmacophores (APfp: 20D atom pair fingerprint, Xfp: 55D category extended atom pair fingerprint), and substructures (Sfp: 1024D binary substructure fingerprint, ECfp4: 1024D extended connectivity fingerprint)...
March 19, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28315975/spatial-patterns-and-frequency-distributions-of-regional-deformation-in-the-healthy-human-lung
#10
Daniel E Hurtado, Nicolás Villarroel, Carlos Andrade, Jaime Retamal, Guillermo Bugedo, Alejandro Bruhn
Understanding regional deformation in the lung has long attracted the medical community, as parenchymal deformation plays a key role in respiratory physiology. Recent advances in image registration make it possible to noninvasively study regional deformation, showing that volumetric deformation in healthy lungs follows complex spatial patterns not necessarily shared by all subjects, and that deformation can be highly anisotropic. In this work, we systematically study the regional deformation in the lungs of eleven human subjects by means of in vivo image-based biomechanical analysis...
March 18, 2017: Biomechanics and Modeling in Mechanobiology
https://www.readbyqxmd.com/read/28306555/assessment-of-dosimetric-impact-of-system-specific-geometric-distortion-in-an-mri-only-based-radiotherapy-workflow-for-prostate
#11
C Gustafsson, F Nordström, E Persson, J Brynolfsson, L E Olsson
Dosimetric errors in a magnetic resonance imaging (MRI) only radiotherapy workflow may be caused by system specific geometric distortion from MRI. The aim of this study was to evaluate the impact on planned dose distribution and delineated structures for prostate patients, originating from this distortion. A method was developed, in which computer tomography (CT) images were distorted using the MRI distortion field. The displacement map for an optimized MRI treatment planning sequence was measured using a dedicated phantom in a 3 T MRI system...
March 17, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28306546/substitute-ct-generation-from-a-single-ultra-short-time-echo-mri-sequence-preliminary-study
#12
Soumya Ghose, Jason A Dowling, Robba Rai, Gary P Liney
In MR guided radiation therapy planning both MR and CT images for a patient are acquired and co-registered to obtain a tissue specific HU map. Generation of the HU map directly from the MRI would eliminate the CT acquisition and may improve radiation therapy planning. In this preliminary study of substitute CT (sCT) generation, two porcine leg phantoms were scanned using a 3D ultrashort echo time (PETRA) sequence and co-registered to corresponding CT images to build tissue specific regression models. The model was created from one co-registered CT-PETRA pair to generate the sCT for the other PETRA image...
March 17, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28302310/design-synthesis-and-anti-diabetic-activity-of-triazolotriazine-derivatives-as-dipeptidyl-peptidase-4-dpp-4-inhibitors
#13
Bhumika D Patel, Shraddha V Bhadada, Manjunath D Ghate
Type 2 diabetes mellitus (T2DM) is one of the major global metabolic disorders characterized by insulin resistance and chronic hyperglycemia. Inhibition of the enzyme, dipeptidyl peptidase-4 (DPP-4) has been proved as successful and safe therapy for the treatment of T2DM since last decade. In order to design novel DPP-4 inhibitors, various in silico studies such as 3D-QSAR, pharmacophore modeling and virtual screening were performed and on the basis of the combined results of them, total 50 triazolo[5,1-c][1,2,4]triazine derivatives were designed and mapped on the best pharmacophore model...
March 6, 2017: Bioorganic Chemistry
https://www.readbyqxmd.com/read/28300376/moving-gpu-opencl-based-monte-carlo-dose-calculation-toward-clinical-use-automatic-beam-commissioning-and-source-sampling-for-treatment-plan-dose-calculation
#14
Zhen Tian, Yongbao Li, Nima Hassan-Rezaeian, Steve B Jiang, Xun Jia
We have previously developed a GPU-based Monte Carlo (MC) dose engine on the OpenCL platform, named goMC, with a built-in analytical linear accelerator (linac) beam model. In this paper, we report our recent improvement on goMC to move it toward clinical use. First, we have adapted a previously developed automatic beam commissioning approach to our beam model. The commissioning was conducted through an optimization process, minimizing the discrepancies between calculated dose and measurement. We successfully commissioned six beam models built for Varian TrueBeam linac photon beams, including four beams of different energies (6 MV, 10 MV, 15 MV, and 18 MV) and two flattening-filter-free (FFF) beams of 6 MV and 10 MV...
March 2017: Journal of Applied Clinical Medical Physics
https://www.readbyqxmd.com/read/28297439/patient-specific-17-segment-myocardial-modeling-on-a-bull-s-eye-map
#15
Joonho Jung, Young-Hak Kim, Namkug Kim, Dong Hyun Yang
The purpose of this study was to develop and validate cardiac computed tomography (CT) quantitative analysis software with a patient-specific, 17-segment myocardial model that uses electrocardiogram (ECG)-gated cardiac CT images to differentiate between normal controls and severe aortic stenosis (AS) patients. ECG-gated cardiac CT images from 35 normal controls and 144 AS patients were semiautomatically segmented to create a patient-specific, 17-segment myocardial model. Two experts then manually determined the anterior and posterior interventricular grooves to be boundaries between the 1st and 2nd segments and between the 3rd and 4th segments, respectively, to correct the model...
September 2016: Journal of Applied Clinical Medical Physics
https://www.readbyqxmd.com/read/28295736/diffusion-prepared-stimulated-echo-turbo-spin-echo-dpsti-tse-an-eddy-current-insensitive-sequence-for-three-dimensional-high-resolution-and-undistorted-diffusion-weighted-imaging
#16
Qinwei Zhang, Bram F Coolen, Maarten J Versluis, Gustav J Strijkers, Aart J Nederveen
In this study, we present a new three-dimensional (3D), diffusion-prepared turbo spin echo sequence based on a stimulated-echo read-out (DPsti-TSE) enabling high-resolution and undistorted diffusion-weighted imaging (DWI). A dephasing gradient in the diffusion preparation module and rephasing gradients in the turbo spin echo module create stimulated echoes, which prevent signal loss caused by eddy currents. Near to perfect agreement of apparent diffusion coefficient (ADC) values between DPsti-TSE and diffusion-weighted echo planar imaging (DW-EPI) was demonstrated in both phantom transient signal experiments and phantom imaging experiments...
March 13, 2017: NMR in Biomedicine
https://www.readbyqxmd.com/read/28287966/deep-learning-segmentation-of-optical-microscopy-images-improves-3d-neuron-reconstruction
#17
Rongjian Li, Tao Zeng, Hanchuan Peng, Shuiwang Ji
Digital reconstruction, or tracing, of 3-dimensional (3D) neuron structure from microscopy images is a critical step toward reversing engineering the wiring and anatomy of a brain. Despite a number of prior attempts, this task remains very challenging, especially when images are contaminated by noises or have discontinued segments of neurite patterns. An approach for addressing such problems is to identify the locations of neuronal voxels using image segmentation methods prior to applying tracing or reconstruction techniques...
March 8, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28287487/ubiquitous-creation-of-bas-relief-surfaces-with-depth-of-field-effects-using-smartphones
#18
Bong-Soo Sohn
This paper describes a new method to automatically generate digital bas-reliefs with depth-of-field effects from general scenes. Most previous methods for bas-relief generation take input in the form of 3D models. However, obtaining 3D models of real scenes or objects is often difficult, inaccurate, and time-consuming. From this motivation, we developed a method that takes as input a set of photographs that can be quickly and ubiquitously captured by ordinary smartphone cameras. A depth map is computed from the input photographs...
March 11, 2017: Sensors
https://www.readbyqxmd.com/read/28282551/novel-fractal-characteristic-of-atomic-force-microscopy-images
#19
Maria N Starodubtseva, Ivan E Starodubtsev, Evgenii G Starodubtsev
Fractal dimension (DF) is one of the important parameters in the description of object's properties in different fields including biology and medicine. The present paper is focused on the application of the fractal dimension (the box counting dimension) in the analysis of the properties of cell surface on the base of its images obtained by atomic force microscopy (AFM). Fractal dimension of digital 3D AFM images depends on interpoint distances determined by the scanning step in the XY-plane and Z-scale factor t...
February 28, 2017: Micron: the International Research and Review Journal for Microscopy
https://www.readbyqxmd.com/read/28282453/the-use-of-a-novel-signal-analysis-to-identify-the-origin-of-idiopathic-right-ventricular-outflow-tract-ventricular-tachycardia-during-sinus-rhythm-simultaneous-amplitude-frequency-electrogram-transformation-mapping
#20
Abigail Louise D Te, Satoshi Higa, Fa-Po Chung, Chin-Yu Lin, Men-Tzung Lo, Che-An Liu, Chen Lin, Yi-Chung Chang, Shih-Lin Chang, Li-Wei Lo, Yu-Feng Hu, Ta-Chuan Tuan, Tze-Fan Chao, Jonan Liao, Yao-Ting Chang, Chung-Hsing Lin, Yuan Hung, Shinya Yamada, Kuo-Li Pan, Yenn-Jiang Lin, Shih-Ann Chen
INTRODUCTION: The signal characteristics of intracardiac bipolar electrograms at the origin of idiopathic RVOT-VT during sinus rhythm remain unclear. OBJECTIVE: The study sought to develop a novel real-time/online technique, simultaneous amplitude frequency electrogram transformation (SAFE-T), to quantify and localize the diseased ventricular substrate in idiopathic RVOT-VT. METHODS: We retrospectively investigated the intracardiac bipolar recordings in 70 consecutive patients (26% male, mean age 42±12 years) who underwent successful radiofrequency catheter ablation of idiopathic RVOT-VT...
2017: PloS One
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