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https://www.readbyqxmd.com/read/29356121/flow-cytometric-method-for-scoring-rat-liver-micronuclei-with-simultaneous-assessments-of-hepatocyte-proliferation
#1
Svetlana L Avlasevich, Sumee Khanal, Priyanka Singh, Dorothea K Torous, Jeffrey C Bemis, Stephen D Dertinger
The current report describes a newly devised method for automatically scoring the incidence of rat hepatocyte micronuclei (MNHEP) via flow cytometry, with concurrent assessments of hepatocyte proliferation-frequency of Ki-67-positive nuclei, and the proportion of polyploid nuclei. Proof-of-concept data are provided from experiments performed with 6-week old male Crl:CD(SD) rats exposed to diethylnitrosamine (DEN) or quinoline (QUIN) for 3 or 14 consecutive days. Non-perfused liver tissue was collected 4 days after cessation of treatment in the case of 3-day studies, or 1 day after last administration in the case of 14-day studies for processing and flow cytometric analysis...
January 22, 2018: Environmental and Molecular Mutagenesis
https://www.readbyqxmd.com/read/29355792/does-the-application-site-of-spinal-manipulative-therapy-alter-spinal-tissues-loading
#2
Martha Funabashi, François Nougarou, Martin Descarreaux, Narasimha Prasad, Gregory N Kawchuk
BACKGROUND CONTEXT: Previous studies found that the intervertebral disc (IVD) experiences the greatest loads during spinal manipulation therapy (SMT). PURPOSE: Based on that, this study aimed to determine if loads experienced by spinal tissues are significantly altered when the application site of SMT is changed. STUDY DESIGN: A biomechanical robotic serial dissection study SAMPLE: 13 porcine cadaveric motion segments OUTCOME MEASURES: Forces experienced by lumbar spinal tissues METHODS: A servo-controlled linear actuator provided standardized 300N SMT simulations to 6 different cutaneous locations of the porcine lumbar spine: L2/L3 and L3/L4 facet joints (FJ), L3 and L4 transverse processes (TVP), and the space between the FJs and TVPs (BTW)...
January 17, 2018: Spine Journal: Official Journal of the North American Spine Society
https://www.readbyqxmd.com/read/29353941/a-bayesian-model-selection-approach-for-identifying-differentially-expressed-transcripts-from-rna-sequencing-data
#3
Panagiotis Papastamoulis, Magnus Rattray
Recent advances in molecular biology allow the quantification of the transcriptome and scoring transcripts as differentially or equally expressed between two biological conditions. Although these two tasks are closely linked, the available inference methods treat them separately: a primary model is used to estimate expression and its output is post processed by using a differential expression model. In the paper, both issues are simultaneously addressed by proposing the joint estimation of expression levels and differential expression: the unknown relative abundance of each transcript can either be equal or not between two conditions...
January 2018: Journal of the Royal Statistical Society. Series C, Applied Statistics
https://www.readbyqxmd.com/read/29352748/use-of-e-learning-in-clinical-clerkships-effects-on-acquisition-of-dermatological-knowledge-and-learning-processes
#4
Frederike Fransen, Herm Martens, Ivo Nagtzaam, Sylvia Heeneman
Objectives: To obtain a deeper understanding of how the e-learning program, Education in Dermatology (ED), affects the acquisition of dermatological knowledge and the underlying learning processes of medical students in their clinical phase. Methods: The study used a mixed method design with a convergent parallel collection of data. Medical students (n=62) from Maastricht University (The Netherlands) were randomized to either a conventional teaching group (control group n=30) or conventional teaching plus the e-learning program (application on smartphone) group (e-learning group n=32)...
January 17, 2018: International Journal of Medical Education
https://www.readbyqxmd.com/read/29351885/repetitive-tms-to-augment-cognitive-processing-therapy-in-combat-veterans-of-recent-conflicts-with-ptsd-a-randomized-clinical-trial
#5
F Andrew Kozel, Michael A Motes, Nyaz Didehbani, Bambi DeLaRosa, Christina Bass, Caitlin D Schraufnagel, Penelope Jones, Cassie Rae Morgan, Jeffrey S Spence, Michael A Kraut, John Hart
BACKGROUND: The objective was to test whether repetitive Transcranial Magnetic Stimulation (rTMS) just prior to Cognitive Processing Therapy (CPT) would significantly improve the clinical outcome compared to sham rTMS prior to CPT in veterans with PTSD. METHODS: Veterans 18-60 years of age with current combat-related PTSD symptoms were randomized, using a 1:1 ratio in a parallel design, to active (rTMS+CPT) versus sham (sham+CPT) rTMS just prior to weekly CPT for 12-15 sessions...
December 28, 2017: Journal of Affective Disorders
https://www.readbyqxmd.com/read/29351478/pentose-phosphate-pathway-activity-parallels-lipogenesis-but-not-antioxidant-processes-in-rat-liver
#6
Eunsook S Jin, Min Hee Lee, Rebecca E Murphy, Craig R Malloy
The pentose phosphate pathway (PPP) is widely assumed to play a key role in both reductive biosynthesis and protection from oxidative stress because it is the major source of NADPH. However, little is known about the activity of the PPP in fatty liver which is characterized by both oxidative stress and lipogenesis. This study was designed to test whether the PPP is active in parallel with lipogenesis and antioxidant processes in the fatty liver of whole animals. Eight- and 16-week old, obese Zucker diabetic fatty rats and their lean littermates received [U-13C3]glycerol, and 13C labeling patterns of glucose and triglycerides were analyzed for the assessment of hepatic PPP activity and the potentially-related processes simultaneously...
January 9, 2018: American Journal of Physiology. Endocrinology and Metabolism
https://www.readbyqxmd.com/read/29351374/fast-dynamic-docking-guided-by-adaptive-electrostatic-bias-the-md-binding-approach
#7
Andrea Spitaleri, Sergio Decherchi, Andrea Cavalli, Walter Rocchia
Engineering chemical entities to modify how pharmaceutical targets function, as it is done in drug design, requires a good understanding of molecular recognition and binding. In this context, the limitations of statically describing bimolecular recognition, as done in docking/scoring, call for insightful and efficient dynamical investigations. On the experimental side, the characterization of dynamical binding processes is still in its infancy. Thus, computer simulations, particularly molecular dynamics (MD), are compelled to play a prominent role, allowing a deeper comprehension of the binding process and its causes and thus a more informed compound selection, making more significant the computational contribution to drug discovery1...
January 19, 2018: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/29351320/coiled-coil-formation-of-the-membrane-fusion-k-e-peptides-viewed-by-electron-paramagnetic-resonance
#8
Pravin Kumar, Martin van Son, Tingting Zheng, Dayenne Valdink, Jan Raap, Alexander Kros, Martina Huber
The interaction of the complementary K (Ac-(KIAALKE)3-GW-NH2) and E (Ac-(EIAALEK)3-GY-NH2) peptides, components of the zipper of an artificial membrane fusion system (Robson Marsden H. et al. Angew Chemie Int Ed. 2009) is investigated by electron paramagnetic resonance (EPR). By frozen solution continuous-wave EPR and double electron-electron resonance (DEER), the distance between spin labels attached to the K- and to the E-peptide is measured. Three constructs of spin-labelled K- and E-peptides are used in five combinations for low temperature investigations...
2018: PloS One
https://www.readbyqxmd.com/read/29351287/a-novel-association-rule-mining-approach-using-tid-intermediate-itemset
#9
Iyad Aqra, Tutut Herawan, Norjihan Abdul Ghani, Adnan Akhunzada, Akhtar Ali, Ramdan Bin Razali, Manzoor Ilahi, Kim-Kwang Raymond Choo
Designing an efficient association rule mining (ARM) algorithm for multilevel knowledge-based transactional databases that is appropriate for real-world deployments is of paramount concern. However, dynamic decision making that needs to modify the threshold either to minimize or maximize the output knowledge certainly necessitates the extant state-of-the-art algorithms to rescan the entire database. Subsequently, the process incurs heavy computation cost and is not feasible for real-time applications. The paper addresses efficiently the problem of threshold dynamic updation for a given purpose...
2018: PloS One
https://www.readbyqxmd.com/read/29350628/inkjet-printing-and-electrical-characterisation-of-dna-templated-cadmium-sulfide-nanowires
#10
Raushan Nurdillayeva, Atsinafe Oshido, Thomas Bamford, Osama El-Zubir, Andrew Houlton, John Hedley, Andrew Pike, Benjamin Horrocks
Cadmium sulfide can be templated on -DNA molecules to form an aqueous dispersion of CdS/-DNA nanowires. Subsequent addition of ethylene glycol to 50% v/v is sufficient to formulate an ink suitable for printing using piezoelectric drop-on-demand technology. Printed droplet arrays show a coffee-ring morphology of individual deposits by fluorescence and Raman microscopy, but upon increasing the number of layers of printed material by repeated printing over each droplet, the dry deposit approaches closer to a disc shape...
January 19, 2018: Nanotechnology
https://www.readbyqxmd.com/read/29347667/minimal-model-of-directed-cell-motility-on-patterned-substrates
#11
Matthew S Mizuhara, Leonid Berlyand, Igor S Aranson
Crawling cell motility is vital to many biological processes such as wound healing and the immune response. Using a minimal model we investigate the effects of patterned substrate adhesiveness and biophysical cell parameters on the direction of cell motion. We show that cells with low adhesion site formation rates may move perpendicular to adhesive stripes while those with high adhesion site formation rates results in motility only parallel to the substrate stripes. We explore the effects of varying the substrate pattern geometry and the strength of actin polymerization on the directionality of the crawling cell...
November 2017: Physical Review. E
https://www.readbyqxmd.com/read/29347520/relativistic-analysis-of-stochastic-kinematics
#12
Massimiliano Giona
The relativistic analysis of stochastic kinematics is developed in order to determine the transformation of the effective diffusivity tensor in inertial frames. Poisson-Kac stochastic processes are initially considered. For one-dimensional spatial models, the effective diffusion coefficient measured in a frame Σ moving with velocity w with respect to the rest frame of the stochastic process is inversely proportional to the third power of the Lorentz factor γ(w)=(1-w^{2}/c^{2})^{-1/2}. Subsequently, higher-dimensional processes are analyzed and it is shown that the diffusivity tensor in a moving frame becomes nonisotropic: The diffusivities parallel and orthogonal to the velocity of the moving frame scale differently with respect to γ(w)...
October 2017: Physical Review. E
https://www.readbyqxmd.com/read/29347437/mechanisms-of-cooperation-and-competition-of-two-species-transport-in-narrow-nanochannels
#13
Wolfgang Rudolf Bauer
Flow of particles of two different species through a narrow channel with solely two discrete spatial positions is analyzed with respect to the species' capability to cooperate or compete for transport. The origin of the latter arises from particle-channel and interparticle interactions within the channel, i.e., blocking the position of a particle, and its interaction with its neighbors in the channel. The variety of occupation options within the channel defines the state space. The transition dynamics within is considered as a continuous Markov process, which, in contrast to mean-field approaches, conserves explicitly spatial correlations...
December 2017: Physical Review. E
https://www.readbyqxmd.com/read/29347242/multi-phase-field-model-for-surface-and-phase-boundary-diffusion
#14
Raphael Schiedung, Reza Darvishi Kamachali, Ingo Steinbach, Fathollah Varnik
The multi-phase-field approach is generalized to treat capillarity-driven diffusion parallel to the surfaces and phase boundaries, i.e., the boundaries between a condensed phase and its vapor and the boundaries between two or multiple condensed phases. The effect of capillarity is modeled via curvature dependence of the chemical potential whose gradient gives rise to diffusion. The model is used to study thermal grooving on the surface of a polycrystalline body. Decaying oscillations of the surface profile during thermal grooving, postulated by Hillert long ago but reported only in few studies so far, are observed and discussed...
July 2017: Physical Review. E
https://www.readbyqxmd.com/read/29346930/proxy-equation-paradigm-a-strategy-for-massively-parallel-asynchronous-computations
#15
Ankita Mittal, Sharath Girimaji
Massively parallel simulations of transport equation systems call for a paradigm change in algorithm development to achieve efficient scalability. Traditional approaches require time synchronization of processing elements (PEs), which severely restricts scalability. Relaxing synchronization requirement introduces error and slows down convergence. In this paper, we propose and develop a novel "proxy equation" concept for a general transport equation that (i) tolerates asynchrony with minimal added error, (ii) preserves convergence order and thus, (iii) expected to scale efficiently on massively parallel machines...
September 2017: Physical Review. E
https://www.readbyqxmd.com/read/29346771/rapid-turnover-of-cortical-ncam1-regulates-synaptic-reorganization-after-peripheral-nerve-injury
#16
Hyoung-Gon Ko, Jun-Hyeok Choi, Dong Ik Park, SukJae Joshua Kang, Chae-Seok Lim, Su-Eon Sim, Jaehoon Shim, Ji-Il Kim, Siyong Kim, Tae-Hyeok Choi, Sanghyun Ye, Jaehyun Lee, Pojeong Park, Somi Kim, Jeehaeh Do, Jihye Park, Md Ariful Islam, Hyun Jeong Kim, Christoph W Turck, Graham L Collingridge, Min Zhuo, Bong-Kiun Kaang
Peripheral nerve injury can induce pathological conditions that lead to persistent sensitized nociception. Although there is evidence that plastic changes in the cortex contribute to this process, the underlying molecular mechanisms are unclear. Here, we find that activation of the anterior cingulate cortex (ACC) induced by peripheral nerve injury increases the turnover of specific synaptic proteins in a persistent manner. We demonstrate that neural cell adhesion molecule 1 (NCAM1) is one of the molecules involved and show that it mediates spine reorganization and contributes to the behavioral sensitization...
January 16, 2018: Cell Reports
https://www.readbyqxmd.com/read/29346703/pursuing-personal-passion-learner-centered-research-mentoring
#17
William R Phillips
New researchers often face difficulty finding and focusing research questions. I describe a new tool for research mentoring, the Pursuing Personal Passion (P3) interview, and a systematic approach to help learners organize their curiosity and develop researchable questions aligned with their personal and professional priorities. The learner-centered P3 research interview parallels the patient-centered clinical interview. This paper reviews experience with 27 research mentees over the years 2009 to 2016, using the P3 approach to identify their initial research topics, classify their underlying passions and track the evolution into their final research questions...
January 2018: Family Medicine
https://www.readbyqxmd.com/read/29346441/a-portable-system-for-processing-donated-whole-blood-into-high-quality-components-without-centrifugation
#18
Sean C Gifford, Briony C Strachan, Hui Xia, Eszter Vörös, Kian Torabian, Taylor A Tomasino, Gary D Griffin, Benjamin Lichtiger, Fleur M Aung, Sergey S Shevkoplyas
BACKGROUND: The use of centrifugation-based approaches for processing donated blood into components is routine in the industrialized world, as disparate storage conditions require the rapid separation of 'whole blood' into distinct red blood cell (RBC), platelet, and plasma products. However, the logistical complications and potential cellular damage associated with centrifugation/apheresis manufacturing of blood products are well documented. The objective of this study was to evaluate a proof-of-concept system for whole blood processing, which does not employ electromechanical parts, is easily portable, and can be operated immediately after donation with minimal human labor...
2018: PloS One
https://www.readbyqxmd.com/read/29346107/brain-mr-image-restoration-using-an-automatic-trilateral-filter-with-gpu-based-acceleration
#19
Herng-Hua Chang, Cheng-Yuan Li, Audrey Haihong Gallogly
OBJECTIVE: Noise reduction in brain magnetic resonance (MR) images has been a challenging and demanding task. This study develops a new trilateral filter that aims to achieve robust and efficient image restoration. METHODS: Extended from the bilateral filter, the proposed algorithm contains one additional intensity similarity funct-ion, which compensates for the unique characteristics of noise in brain MR images. An entropy function adaptive to intensity variations is introduced to regulate the contributions of the weighting components...
February 2018: IEEE Transactions on Bio-medical Engineering
https://www.readbyqxmd.com/read/29346018/the-tortoise-and-the-hare-interactions-between-reinforcement-learning-and-working-memory
#20
Anne G E Collins
Learning to make rewarding choices in response to stimuli depends on a slow but steady process, reinforcement learning, and a fast and flexible, but capacity-limited process, working memory. Using both systems in parallel, with their contributions weighted based on performance, should allow us to leverage the best of each system: rapid early learning, supplemented by long-term robust acquisition. However, this assumes that using one process does not interfere with the other. We use computational modeling to investigate the interactions between the two processes in a behavioral experiment and show that working memory interferes with reinforcement learning...
January 18, 2018: Journal of Cognitive Neuroscience
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