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https://www.readbyqxmd.com/read/29792514/a-flow-procedure-for-linearization-of-genome-sequence-graphs
#1
David Haussler, Maciej Smuga-Otto, Jordan M Eizenga, Benedict Paten, Adam M Novak, Sergei Nikitin, Maria Zueva, Dmitrii Miagkov
Efforts to incorporate human genetic variation into the reference human genome have converged on the idea of a graph representation of genetic variation within a species, a genome sequence graph. A sequence graph represents a set of individual haploid reference genomes as paths in a single graph. When that set of reference genomes is sufficiently diverse, the sequence graph implicitly contains all frequent human genetic variations, including translocations, inversions, deletions, and insertions. In representing a set of genomes as a sequence graph, one encounters certain challenges...
May 24, 2018: Journal of Computational Biology: a Journal of Computational Molecular Cell Biology
https://www.readbyqxmd.com/read/29784799/amorphous-boron-oxide-at-megabar-pressures-via-inelastic-x-ray-scattering
#2
Sung Keun Lee, Yong-Hyun Kim, Paul Chow, Yunming Xiao, Cheng Ji, Guoyin Shen
Structural transition in amorphous oxides, including glasses, under extreme compression above megabar pressures (>1 million atmospheric pressure, 100 GPa) results in unique densification paths that differ from those in crystals. Experimentally verifying the atomistic origins of such densifications beyond 100 GPa remains unknown. Progress in inelastic X-ray scattering (IXS) provided insights into the pressure-induced bonding changes in oxide glasses; however, IXS has a signal intensity several orders of magnitude smaller than that of elastic X-rays, posing challenges for probing glass structures above 100 GPa near the Earth's core-mantle boundary...
May 21, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29779953/a-quality-assurance-device-for-measuring-afterloader-performance-and-transit-dose-for-nasobiliary-high-dose-rate-brachytherapy
#3
Christopher L Deufel, John P Mullins, Mark J Zakhary
PURPOSE: Nasobiliary high-dose-rate (HDR) brachytherapy has emerged as an effective tool to boost the radiation dose for patients with unresectable perihilar cholangiocarcinoma. This work describes a quality assurance (QA) tool for measuring the HDR afterloader's performance, including the transit dose, when the source wire travels through a tortuous nasobiliary catheter path. METHODS AND MATERIALS: The nasobiliary QA device was designed to mimic the anatomical path of a nasobiliary catheter, including the nasal, stomach, duodenum, and bile duct loops...
May 17, 2018: Brachytherapy
https://www.readbyqxmd.com/read/29777976/exploration-of-the-effect-of-violent-crime-on-recreational-and-transportation-walking-by-path-and-structural-equation-models
#4
Devajyoti Deka, Charles T Brown, James Sinclair
To examine how violent crime affects people's recreational and transportation walking duration in daytime and after dark on a typical day, this study undertakes associative and causal analyses with geo-referenced crime data, street-audit data, and data collected through an intercept survey in a three-municipality region of New Jersey that is predominantly inhabited by low-income and minority populations. Survey data was collected from 1173 respondents at 87 intersections selected by stratified random sampling...
May 16, 2018: Health & Place
https://www.readbyqxmd.com/read/29776054/least-rattling-feedback-from-strong-time-scale-separation
#5
Pavel Chvykov, Jeremy England
In most interacting many-body systems associated with some "emergent phenomena," we can identify subgroups of degrees of freedom that relax on dramatically different time scales. Time-scale separation of this kind is particularly helpful in nonequilibrium systems where only the fast variables are subjected to external driving; in such a case, it may be shown through elimination of fast variables that the slow coordinates effectively experience a thermal bath of spatially varying temperature. In this paper, we investigate how such a temperature landscape arises according to how the slow variables affect the character of the driven quasisteady state reached by the fast variables...
March 2018: Physical Review. E
https://www.readbyqxmd.com/read/29772754/transitioning-from-acute-to-chronic-pain-an-examination-of-different-trajectories-of-low-back-pain
#6
Robert J Gatchel, Kelley Bevers, John C Licciardone, Jianzhong Su, Ying Du, Marco Brotto
Traditionally, there has been a widely accepted notion that the transition from acute to chronic pain follows a linear trajectory, where an injury leads to acute episodes, subacute stages, and progresses to a chronic pain condition. However, it appears that pain progression is much more complicated and individualized than this original unsupported assumption. It is now becoming apparent that, while this linear progression may occur, it is not the only path that pain, specifically low-back pain, follows. It is clear there is a definite need to evaluate how low-back pain trajectories are classified and, subsequently, how we can more effectively intervene during these progression stages...
May 17, 2018: Healthcare (Basel, Switzerland)
https://www.readbyqxmd.com/read/29772109/effects-of-growing-location-on-the-production-of-main-active-components-and-antioxidant-activity-of-dasiphora-fruticosa-l-rydb-by-chemometric-methods
#7
Wei Liu, Dongmei Wang, Xiaogai Hou, Yueqin Yang, Xian Xue, Qishi Jia, Lixia Zhang, Wei Zhao, Dongxue Yin
Traditional Chinese medicine (TCM) plays a very important role in the health system of China. The content and activity of active component are main indexes that evaluate the quality of TCM, however they may vary with environmental factors in their growing locations. In this study, effects of environmental factors on the contents of active components and antioxidant activity of Dasiphora fruticosa from the five main production areas of China were investigated. The contents of tannin, total flavonoid and rutin were determined and varied within the range of 7...
May 17, 2018: Chemistry & Biodiversity
https://www.readbyqxmd.com/read/29764138/quantum-optical-measurement-with-tripartite-entangled-photons-generated-by-triple-parametric-down-conversion
#8
Minhaeng Cho
Parametric down-conversion is a second-order nonlinear optical process annihilating a pump photon and creating a pair of photons in the signal and idler modes. Then, by using two parametric down-converters and introducing a path indistinguishability for the two generated idler modes, a quantum coherence between two conjugate signal beams can be induced. Such a double spontaneous or stimulated parametric down-conversion scheme has been used to demonstrate quantum spectroscopy and imaging with undetected idler photons via measuring one-photon interference between their correlated signal beams...
May 14, 2018: Journal of Chemical Physics
https://www.readbyqxmd.com/read/29761257/critical-places-beyond-the-psychology-of-well-being-and-competitiveness
#9
Tatiana Chemi
The purpose of the present contribution is to look beyond the limits evident in dualistic discourses in educational practices. Torn between the promises of well-being or the hard facts of competitiveness, educational institutions at all levels of instruction might miss the point of a more holistic approach to learning and creativity. Looking beyond dichotomous discourses in educational practices is harder than ever, in a world where globalisation demands high standards of competitiveness and neoliberalism denies all but economic growth targets...
May 14, 2018: Integrative Psychological & Behavioral Science
https://www.readbyqxmd.com/read/29758739/revealing-the-microstructure-of-the-giant-component-in-random-graph-ensembles
#10
Ido Tishby, Ofer Biham, Eytan Katzav, Reimer Kühn
The microstructure of the giant component of the Erdős-Rényi network and other configuration model networks is analyzed using generating function methods. While configuration model networks are uncorrelated, the giant component exhibits a degree distribution which is different from the overall degree distribution of the network and includes degree-degree correlations of all orders. We present exact analytical results for the degree distributions as well as higher-order degree-degree correlations on the giant components of configuration model networks...
April 2018: Physical Review. E
https://www.readbyqxmd.com/read/29757741/saliency-detection-via-absorbing-markov-chain-with-learnt-transition-probability
#11
Lihe Zhang, Jianwu Ai, Bowen Jiang, Huchuan Lu, Xiukui Li
In this paper, we propose a bottom-up saliency model based on absorbing Markov chain (AMC). First, a sparsely connected graph is constructed to capture the local context information of each node. All image boundary nodes and other nodes are, respectively, treated as the absorbing nodes and transient nodes in the absorbing Markov chain. Then, the expected number of times from each transient node to all other transient nodes can be used to represent the saliency value of this node. The absorbed time depends on the weights on the path and their spatial coordinates, which are completely encoded in the transition probability matrix...
February 2018: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
https://www.readbyqxmd.com/read/29757231/speckle-filtering-of-gf-3-polarimetric-sar-data-with-joint-restriction-principle
#12
Jinwei Xie, Zhenfang Li, Chaowei Zhou, Yuyuan Fang, Qingjun Zhang
Polarimetric SAR (PolSAR) scattering characteristics of imagery are always obtained from the second order moments estimation of multi-polarization data, that is, the estimation of covariance or coherency matrices. Due to the extra-paths that signal reflected from separate scatterers within the resolution cell has to travel, speckle noise always exists in SAR images and has a severe impact on the scattering performance, especially on single look complex images. In order to achieve high accuracy in estimating covariance or coherency matrices, three aspects are taken into consideration: (1) the edges and texture of the scene are distinct after speckle filtering; (2) the statistical characteristic should be similar to the object pixel; and (3) the polarimetric scattering signature should be preserved, in addition to speckle reduction...
May 12, 2018: Sensors
https://www.readbyqxmd.com/read/29756968/the-bfmnu-method-as-an-alternative-to-the-methods-in-use-based-on-energy-study-of-the-correlation-between-food-energy-and-body-mass
#13
Greta Rondini, Beatrice Olearo, José Miguel Soriano Del Castillo, Pietro Marco Boselli
INTRODUCTION: to establish slimming guidelines and any other changing treatments is useful to know the individual's energy expenditure due to the fact that, nowadays, the incidence of many diseases related to the loss of lean mass and the accumulation of adipose tissue has increased. The dietary treatments are carried out on calculating the energy contained in food, and then put in relation to the total energy expended by the body in order to produce changes in body mass. OBJECTIVE: the aim of this study was to evaluate the correlation between the food energy and body mass of different subjects in various pathophysiological conditions...
March 1, 2018: Nutrición Hospitalaria: Organo Oficial de la Sociedad Española de Nutrición Parenteral y Enteral
https://www.readbyqxmd.com/read/29756845/thermoelectric-power-factor-limit-of-a-1d-nanowire
#14
I-Ju Chen, Adam Burke, Artis Svilans, Heiner Linke, Claes Thelander
In the past decade, there has been significant interest in the potentially advantageous thermoelectric properties of one-dimensional (1D) nanowires, but it has been challenging to find high thermoelectric power factors based on 1D effects in practice. Here we point out that there is an upper limit to the thermoelectric power factor of nonballistic 1D nanowires, as a consequence of the recently established quantum bound of thermoelectric power output. We experimentally test this limit in quasiballistic InAs nanowires by extracting the maximum power factor of the first 1D subband through I-V characterization, finding that the measured maximum power factors conform to the theoretical limit...
April 27, 2018: Physical Review Letters
https://www.readbyqxmd.com/read/29755742/multiple-scale-structures-from-faraday-waves-to-soft-matter-quasicrystals
#15
REVIEW
Samuel Savitz, Mehrtash Babadi, Ron Lifshitz
For many years, quasicrystals were observed only as solid-state metallic alloys, yet current research is now actively exploring their formation in a variety of soft materials, including systems of macromolecules, nanoparticles and colloids. Much effort is being invested in understanding the thermodynamic properties of these soft-matter quasicrystals in order to predict and possibly control the structures that form, and hopefully to shed light on the broader yet unresolved general questions of quasicrystal formation and stability...
May 1, 2018: IUCrJ
https://www.readbyqxmd.com/read/29755251/associations-between-psychopathology-in-mothers-fathers-and-their-children-a-structural-modeling-approach
#16
D Weijers, F J A van Steensel, S M Bögels
This study investigated associations between parental and child psychopathology with parenting stress as a possible mediator, in order to get more insight in mothers' and fathers' roles in the development of psychopathology in children. Parents of 272 clinically referred (aged 6-20, 66% boys) reported about their own and their child's behavioral problems, and about parenting stress. Data were analyzed using Structural Equation Modeling. Outcomes of path models demonstrated that mothers' higher internalizing and externalizing problems were associated with respectively children's higher internalizing and externalizing problems...
2018: Journal of Child and Family Studies
https://www.readbyqxmd.com/read/29753728/retinal-adaptation-to-dim-light-vision-in-spectacled-caimans-caiman-crocodilus-fuscus-analysis-of-retinal-ultrastructure
#17
Anett Karl, Silke Agte, Astrid Zayas-Santiago, Felix N Makarov, Yomarie Rivera, Jan Benedikt, Mike Francke, Andreas Reichenbach, Serguei N Skatchkov, Andreas Bringmann
It has been shown that mammalian retinal glial (Müller) cells act as living optical fibers that guide the light through the retinal tissue to the photoreceptor cells (Agte et al., 2011; Franze et al., 2007). However, for nonmammalian species it is unclear whether Müller cells also improve the transretinal light transmission. Furthermore, for nonmammalian species there is a lack of ultrastructural data of the retinal cells, which, in general, delivers fundamental information of the retinal function, i.e. the vision of the species...
May 10, 2018: Experimental Eye Research
https://www.readbyqxmd.com/read/29753447/matrix-factorization-based-instrumental-variable-approach-for-simultaneous-identification-of-bi-directional-path-models
#18
Benben Jiang, Yi Luo
This paper proposes a closed-loop identification approach to integrate matrix factorization algorithms with generalized instrumental variable (GIV) techniques to simultaneously identify the parameters and orders for both forward and backward path models. Aside from the technique of UD factorization, the QR factorization technique, which possesses good numerical property, is utilized for the proposed GIV-based method. The major difficulty and novelty of the proposed approach lies in how to properly construct instruments, number of instruments, and weighting matrices to obtain enhanced identification performance...
May 9, 2018: ISA Transactions
https://www.readbyqxmd.com/read/29750815/abnormal-gait-pattern-emerges-during-curved-trajectories-in-high-functioning-parkinsonian-patients-walking-in-line-at-normal-speed
#19
Anna Maria Turcato, Marco Godi, Marica Giardini, Ilaria Arcolin, Antonio Nardone, Andrea Giordano, Marco Schieppati
BACKGROUND: Several patients with Parkinson´s disease (PD) can walk normally along straight trajectories, and impairment in their stride length and cadence may not be easily discernible. Do obvious abnormalities occur in these high-functioning patients when more challenging trajectories are travelled, such as circular paths, which normally implicate a graded modulation in the duration of the interlimb gait cycle phases? METHODS: We compared a cohort of well-treated mildly to moderately affected PD patients to a group of age-matched healthy subjects (HS), by deliberately including HS spontaneously walking at the same speed of the patients with PD...
2018: PloS One
https://www.readbyqxmd.com/read/29750283/constipation-management-in-pediatric-primary-care
#20
Leah Khan
Constipation is a common and often difficult to manage problem encountered in outpatient primary care. Although we give our patients many different modalities to treat constipation (eg, diet changes, behavior modification, probiotics, medication), there is little evidence to support any of these modalities. We also tend to order unnecessary tests during the diagnostic process. This article tries to clarify the diagnostic process and provide a clear treatment path to be used for functional constipation. [Pediatr Ann...
May 1, 2018: Pediatric Annals
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