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https://www.readbyqxmd.com/read/28544880/systems-wide-studies-uncover-commander-a-multiprotein-complex-essential-to-human-development
#1
REVIEW
Anna L Mallam, Edward M Marcotte
Recent mass spectrometry maps of the human interactome independently support the existence of a large multiprotein complex, dubbed "Commander." Broadly conserved across animals and ubiquitously expressed in nearly every human cell type examined thus far, Commander likely plays a fundamental cellular function, akin to other ubiquitous machines involved in expression, proteostasis, and trafficking. Experiments on individual subunits support roles in endosomal protein sorting, including the trafficking of Notch proteins, copper transporters, and lipoprotein receptors...
May 24, 2017: Cell Systems
https://www.readbyqxmd.com/read/28543704/comparison-of-2-vs-3-dimensional-fracture-mapping-strategies-for-3-dimensional-computerized-tomography-reconstructions-of-scapula-neck-body-fractures
#2
Anthony J Dugarte, Luisa Tkany, Lisa K Schroder, Andreas Petersik, Peter A Cole
Fracture mapping has been used in the understanding of injury patterns in different bones. To our knowledge, there are no applications of this technique using three-dimensional (3D) morphologic fracture characteristics. Previously, scapula fractures were mapped by transferring information from 3D computed tomography to a two-dimensional (2D) template. Cole et al. determined that 3D Computerized Tomography (CT) scans were more reliable compared to plain radiographs in terms of scapular angulation, translation, and glenopolar angle measurements...
May 19, 2017: Journal of Orthopaedic Research: Official Publication of the Orthopaedic Research Society
https://www.readbyqxmd.com/read/28543430/planet-an-ellipse-fitting-approach-for-simultaneous-t1-and-t2-mapping-using-phase-cycled-balanced-steady-state-free-precession
#3
Yulia Shcherbakova, Cornelis A T van den Berg, Chrit T W Moonen, Lambertus W Bartels
PURPOSE: To demonstrate the feasibility of a novel, ellipse fitting approach, named PLANET, for simultaneous estimation of relaxation times T1 and T2 from a single 3D phase-cycled balanced steady-state free precession (bSSFP) sequence. METHODS: A method is presented in which the elliptical signal model is used to describe the phase-cycled bSSFP steady-state signal. The fitting of the model to the acquired data is reformulated into a linear convex problem, which is solved directly by a linear least squares method, specific to ellipses...
May 22, 2017: Magnetic Resonance in Medicine: Official Journal of the Society of Magnetic Resonance in Medicine
https://www.readbyqxmd.com/read/28543088/3d-quantitative-structure-activity-relationship-and-docking-studies-of-coumarin-derivatives-as-tissue-kallikrein-7-inhibitors
#4
Xin Zheng, Mengxi He, Xiao Tan, Jun Zheng, Fangyu Wang, Sen Liu
OBJECTIVES: Kallikrein 7 (KLK7) is a secreted serine protease that plays important roles in skin desquamation and tumour progression, which makes it an attracting drug target. To guide the design of KLK7 inhibitors, a series of coumarin-based inhibitors were used to perform 3D-quantitative structure-activity relationship analysis. METHODS: 3D conformations of 37 inhibitors were generated and used to construct CoMFA and CoMSIA models. Then a complex model between the inhibitors and KLK7 was built with molecular docking...
May 23, 2017: Journal of Pharmacy and Pharmacology
https://www.readbyqxmd.com/read/28541507/current-management-and-clinical-outcomes-for-catheter-ablation-of-atrioventricular-nodal-re-entrant-tachycardia
#5
Jonathan Chrispin, Satish Misra, Joseph E Marine, John Rickard, Andreas Barth, Aravindan Kolandaivelu, Hiroshi Ashikaga, Harikrishna Tandri, David D Spragg, Jane Crosson, Ronald D Berger, Gordon Tomaselli, Hugh Calkins, Sunil K Sinha
Aims: Historical studies of ablation of atrioventricular nodal re-entrant tachycardia (AVNRT) have shown high long-term success rates and low complication rates. The potential impact of several recent practice trends has not been described. This study aims to characterize recent clinical practice trends in AVNRT ablation and their associated success rates and complications. Methods and results: Patients undergoing initial ablation of AVNRT between 1 July 2005 and 30 June 2015 were included in this study...
May 24, 2017: Europace: European Pacing, Arrhythmias, and Cardiac Electrophysiology
https://www.readbyqxmd.com/read/28537140/molecular-modeling-driven-approach-for-identification-of-janus-kinase-1-inhibitors-through-3d-qsar-docking-and-molecular-dynamics-simulations
#6
Ramesh Itteboina, Srilata Ballu, Sree Kanth Sivan, Vijjulatha Manga
Janus kinase 1 (JAK 1) belongs to the JAK family of intracellular nonreceptor tyrosine kinase. JAK-signal transducer and activator of transcription (JAK-STAT) pathway mediate signaling by cytokines, which control survival, proliferation and differentiation of a variety of cells. Three-dimensional quantitative structure activity relationship (3 D-QSAR), molecular docking and molecular dynamics (MD) methods was carried out on a dataset of Janus kinase 1(JAK 1) inhibitors. Ligands were constructed and docked into the active site of protein using GLIDE 5...
May 24, 2017: Journal of Receptor and Signal Transduction Research
https://www.readbyqxmd.com/read/28537071/clmsvault-a-software-suite-for-protein-cross-linking-mass-spectrometry-data-analysis-and-visualization
#7
Mathieu Courcelles, Jasmin Coulombe-Huntington, Émilie Cossette, Anne-Claude Gingras, Pierre Thibault, Michael Tyers
Protein cross-linking mass spectrometry (CL-MS) enables the sensitive detection of protein interactions and the inference of protein complex topology. The detection of chemical cross-links between protein residues can identify intra- and inter-protein contact sites and/or provide physical constraints for molecular modeling of protein structure. Recent innovations in cross-linker design, sample preparation, mass spectrometry and software tools have significantly improved CL-MS approaches. Although a number of algorithms now exist for the identification of cross-linked peptides from mass spectral data, a dearth of user-friendly analysis tools represent a practical bottleneck to the broad adoption of the approach...
May 24, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/28535918/polymer-gel-dosimeters-for-pretreatment-radiotherapy-verification-using-the-three-dimensional-gamma-evaluation-and-pass-rate-maps
#8
Ling-Ling Hsieh, Jiunn-I Shieh, Li-Ju Wei, Yi-Chun Wang, Kai-Yuan Cheng, Cheng-Ting Shih
Polymer gel dosimeters (PGDs) have been widely studied for use in the pretreatment verification of clinical radiation therapy. However, the readability of PGDs in three-dimensional (3D) dosimetry remain unclear. In this study, the pretreatment verifications of clinical radiation therapy were performed using an N-isopropyl-acrylamide (NIPAM) PGD, and the results were used to evaluate the performance of the NIPAM PGD on 3D dose measurement. A gel phantom was used to measure the dose distribution of a clinical case of intensity-modulated radiation therapy...
May 2017: Physica Medica: PM
https://www.readbyqxmd.com/read/28533140/3d-interactive-surgical-visualization-system-using-mobile-spatial-information-acquisition-and-autostereoscopic-display
#9
Zhencheng Fan, Yitong Weng, Guowen Chen, Hongen Liao
Three-dimensional (3D) visualization of preoperative and intraoperative medical information becomes more and more important in minimally invasive surgery. We develop a 3D interactive surgical visualization system using mobile spatial information acquisition and autostereoscopic display for surgeons to observe surgical target intuitively. The spatial information of regions of interest (ROIs) is captured by the mobile device and transferred to a server for further image processing. Triangular patches of intraoperative data with texture are calculated with a dimension-reduced triangulation algorithm and a projection-weighted mapping algorithm...
May 19, 2017: Journal of Biomedical Informatics
https://www.readbyqxmd.com/read/28533086/spatio-temporal-pattern-of-neuronal-differentiation-in-the-drosophila-visual-system-a-user-s-guide-to-the-dynamic-morphology-of-the-developing-optic-lobe
#10
Kathy T Ngo, Ingrid Andrade, Volker Hartenstein
Visual information processing in animals with large image forming eyes is carried out in highly structured retinotopically ordered neuropils. Visual neuropils in Drosophila form the optic lobe, which consists of four serially arranged major subdivisions; the lamina, medulla, lobula and lobula plate; the latter three of these are further subdivided into multiple layers. The visual neuropils are formed by more than 100 different cell types, distributed and interconnected in an invariant highly regular pattern...
May 19, 2017: Developmental Biology
https://www.readbyqxmd.com/read/28530232/tomographic-active-optical-trapping-of-arbitrarily-shaped-objects-by-exploiting-3d-refractive-index-maps
#11
Kyoohyun Kim, YongKeun Park
Optical trapping can manipulate the three-dimensional (3D) motion of spherical particles based on the simple prediction of optical forces and the responding motion of samples. However, controlling the 3D behaviour of non-spherical particles with arbitrary orientations is extremely challenging, due to experimental difficulties and extensive computations. Here, we achieve the real-time optical control of arbitrarily shaped particles by combining the wavefront shaping of a trapping beam and measurements of the 3D refractive index distribution of samples...
May 22, 2017: Nature Communications
https://www.readbyqxmd.com/read/28528636/correlative-two-photon-and-serial-block-face-scanning-electron-microscopy-in-neuronal-tissue-using-3d-near-infrared-branding-maps
#12
Robert M Lees, Christopher J Peddie, Lucy M Collinson, Michael C Ashby, Paul Verkade
Linking cellular structure and function has always been a key goal of microscopy, but obtaining high resolution spatial and temporal information from the same specimen is a fundamental challenge. Two-photon (2P) microscopy allows imaging deep inside intact tissue, bringing great insight into the structural and functional dynamics of cells in their physiological environment. At the nanoscale, the complex ultrastructure of a cell's environment in tissue can be reconstructed in three dimensions (3D) using serial block face scanning electron microscopy (SBF-SEM)...
2017: Methods in Cell Biology
https://www.readbyqxmd.com/read/28528634/3d-subcellular-localization-with-superresolution-array-tomography-on-ultrathin-sections-of-various-species
#13
Sebastian M Markert, Vivien Bauer, Thomas S Muenz, Nicola G Jones, Frederik Helmprobst, Sebastian Britz, Markus Sauer, Wolfgang Rössler, Markus Engstler, Christian Stigloher
Array Tomography (AT) is a relatively easy-to-use and yet powerful method to put molecular identity in its full ultrastructural context. Ultrathin sections are stained with fluorophores and then imaged by light and afterward by electron microscopy to obtain a correlated view of a region of interest: its ultrastructure and specific staining. By combining AT with high-pressure freezing for superior structural preservation and superresolution light microscopy, even small subcellular structures can be mapped in 3D...
2017: Methods in Cell Biology
https://www.readbyqxmd.com/read/28528295/a-machine-learning-graph-based-approach-for-3d-segmentation-of-bruch-s-membrane-opening-from-glaucomatous-sd-oct-volumes
#14
Mohammad Saleh Miri, Michael D Abràmoff, Young H Kwon, Milan Sonka, Mona K Garvin
Bruch's membrane opening-minimum rim width (BMO-MRW) is a recently proposed structural parameter which estimates the remaining nerve fiber bundles in the retina and is superior to other conventional structural parameters for diagnosing glaucoma. Measuring this structural parameter requires identification of BMO locations within spectral domain-optical coherence tomography (SD-OCT) volumes. While most automated approaches for segmentation of the BMO either segment the 2D projection of BMO points or identify BMO points in individual B-scans, in this work, we propose a machine-learning graph-based approach for true 3D segmentation of BMO from glaucomatous SD-OCT volumes...
May 6, 2017: Medical Image Analysis
https://www.readbyqxmd.com/read/28527792/3d-cmro2-mapping-in-human-brain-with-direct-17-o-mri-comparison-of-conventional-and-proton-constrained-reconstructions
#15
Dmitry Kurzhunov, Robert Borowiak, Marco Reisert, Axel Joachim Krafft, Ali Caglar Özen, Michael Bock
Oxygen metabolism is altered in brain tumor regions and is quantified by the cerebral metabolic rate of oxygen consumption (CMRO2). Direct dynamic (17)O MRI with inhalation of isotopically enriched (17)O2 gas can be used to quantify CMRO2; however, pixel-wise CMRO2 quantification in human brain is challenging due to low natural abundance of (17)O isotope and, thus, the low signal-to-noise ratio (SNR) of (17)O MR images. To test the feasibility CMRO2 mapping at a clinical 3 T MRI system, a new iterative reconstruction was proposed, which uses the edge information contained in a co-registered (1)H gradient image to construct a non-homogeneous anisotropic diffusion (AD) filter...
May 17, 2017: NeuroImage
https://www.readbyqxmd.com/read/28515424/a-split-ring-resonator-dielectric-probe-for-near-field-dielectric-imaging
#16
Dmitry Isakov, Chris J Stevens, Flynn Castles, Patrick S Grant
A single split-ring resonator (SRR) probe for 2D surface mapping and imaging of relative dielectric permittivity for the characterisation of composite materials has been developed. The imaging principle, the analysis and the sensitivity of the SRR surface dielectric probe data is described. The surface dielectric properties of composite materials in the frequency range 1-3 GHz have been measured based on the magnetic resonance frequency of the transmission loss of the SRR dielectric probe when in contact with the surface...
May 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28515413/magnetic-susceptibility-changes-in-the-basal-ganglia-and-brain-stem-of-patients-with-wilson-s-disease-evaluation-with-quantitative-susceptibility-mapping
#17
Selim Doganay, Kazim Gumus, Gonca Koc, Ayse Kacar Bayram, Mehmet Sait Dogan, Duran Arslan, Hakan Gumus, Sureyya Burcu Gorkem, Saliha Ciraci, Halil Ibrahim Serin, Abdulhakim Coskun
OBJECTIVES: Wilson's disease (WD) is characterized with the accumulation of copper in the liver and brain. The objective of this study is to quantitatively measure the susceptibility changes of basal ganglia and brain stem of pediatric patients with neurological WD using quantitative susceptibility mapping (QSM) in comparison to healthy controls. METHODS: Eleven patients with neurological WD (mean age 15 ± 3.3 years, range 10-22 years) and 14 age-matched controls were prospectively recruited...
May 18, 2017: Magnetic Resonance in Medical Sciences: MRMS
https://www.readbyqxmd.com/read/28514687/particulate-array-of-well-ordered-hiv-clade-c-env-trimers-elicits-neutralizing-antibodies-that-display-a-unique-v2-cap-approach
#18
Paola Martinez-Murillo, Karen Tran, Javier Guenaga, Gustaf Lindgren, Monika Àdori, Yu Feng, Ganesh E Phad, Néstor Vázquez Bernat, Shridhar Bale, Jidnyasa Ingale, Viktoriya Dubrovskaya, Sijy O'Dell, Lotta Pramanik, Mats Spångberg, Martin Corcoran, Karin Loré, John R Mascola, Richard T Wyatt, Gunilla B Karlsson Hedestam
The development of soluble envelope glycoprotein (Env) mimetics displaying ordered trimeric symmetry has ushered in a new era in HIV-1 vaccination. The recently reported native, flexibly linked (NFL) design allows the generation of native-like trimers from clinical isolates at high yields and homogeneity. As the majority of infections world-wide are of the clade C subtype, we examined responses in non-human primates to well-ordered subtype C 16055 trimers administered in soluble or high-density liposomal formats...
May 16, 2017: Immunity
https://www.readbyqxmd.com/read/28512434/evaluation-of-a-rapid-anisotropic-model-for-ecg-simulation
#19
Simone Pezzuto, Peter Kal'avský, Mark Potse, Frits W Prinzen, Angelo Auricchio, Rolf Krause
State-of-the-art cardiac electrophysiology models that are able to deliver physiologically motivated activation maps and electrocardiograms (ECGs) can only be solved on high-performance computing architectures. This makes it nearly impossible to adopt such models in clinical practice. ECG imaging tools typically rely on simplified models, but these neglect the anisotropic electric conductivity of the tissue in the forward problem. Moreover, their results are often confined to the heart-torso interface. We propose a forward model that fully accounts for the anisotropic tissue conductivity and produces the standard 12-lead ECG in a few seconds...
2017: Frontiers in Physiology
https://www.readbyqxmd.com/read/28507724/deep-learning-and-3d-desi-imaging-reveal-the-hidden-metabolic-heterogeneity-of-cancer
#20
Paolo Inglese, James S McKenzie, Anna Mroz, James Kinross, Kirill Veselkov, Elaine Holmes, Zoltan Takats, Jeremy K Nicholson, Robert C Glen
Visual inspection of tumour tissues does not reveal the complex metabolic changes that differentiate cancer and its sub-types from healthy tissues. Mass spectrometry imaging, which quantifies the underlying chemistry, represents a powerful tool for the molecular exploration of tumour tissues. A 3-dimensional topological description of the chemical properties of the tumour permits the formulation of hypotheses about the biological composition and interactions and the possible causes of its heterogeneous structure...
May 1, 2017: Chemical Science
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