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https://www.readbyqxmd.com/read/28728147/efficient-maximum-likelihood-estimation-for-pedigree-data-with-the-sum-product-algorithm
#1
Alexander Engelhardt, Anna Rieger, Achim Tresch, Ulrich Mansmann
OBJECTIVE: We analyze data sets consisting of pedigrees with age at onset of colorectal cancer (CRC) as phenotype. The occurrence of familial clusters of CRC suggests the existence of a latent, inheritable risk factor. We aimed to compute the probability of a family possessing this risk factor as well as the hazard rate increase for these risk factor carriers. Due to the inheritability of this risk factor, the estimation necessitates a costly marginalization of the likelihood. METHODS: We propose an improved EM algorithm by applying factor graphs and the sum-product algorithm in the E-step...
July 21, 2017: Human Heredity
https://www.readbyqxmd.com/read/28728010/advances-in-point-of-care-technologies-for-molecular-diagnostics
#2
REVIEW
Mohammad Zarei
Advances in miniaturization, nanotechnology, and microfluidics, along with developments in cloud-connected point-of-care (POC) diagnostics technologies are pushing the frontiers of POC devices toward low-cost, user-friendly, and enhanced sensitivity molecular-level diagnostics. The combination of various bio-sensing platforms within smartphone-integrated electronic readers provides accurate on-site and on-time diagnostics based on various types of chemical and biological targets. Further, 3D printing technology shows a huge potential toward fabrication and improving the performance of POC devices...
July 11, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28727963/going-in-many-right-directions-all-at-once
#3
Susan T Fiske
When asked whether the field is going in the right direction, my answer is "yes, mostly." Policymakers' respect and the public's interest put us in the spotlight for our intrinsic strengths-but they also draw attention to our weaknesses as reflected by the replication crisis, about which reasonable opinions differ. Among other concerns, civility and mutual tolerance have sometimes been an issue in these debates. As an example of a constructive debate, our lab's recent experience with mutually respectful engagement has advanced solving one scientific puzzle...
July 2017: Perspectives on Psychological Science: a Journal of the Association for Psychological Science
https://www.readbyqxmd.com/read/28727789/lumpgem-systematic-generation-of-subnetworks-and-elementally-balanced-lumped-reactions-for-the-biosynthesis-of-target-metabolites
#4
Meric Ataman, Vassily Hatzimanikatis
In the post-genomic era, Genome-scale metabolic networks (GEMs) have emerged as invaluable tools to understand metabolic capabilities of organisms. Different parts of these metabolic networks are defined as subsystems/pathways, which are sets of functional roles to implement a specific biological process or structural complex, such as glycolysis and TCA cycle. Subsystem/pathway definition is also employed to delineate the biosynthetic routes that produce biomass building blocks. In databases, such as MetaCyc and SEED, these representations are composed of linear routes from precursors to target biomass building blocks...
July 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28727767/exploring-the-binding-pathways-of-the-14-3-3%C3%AE-protein-structural-and-free-energy-profiles-revealed-by-hamiltonian-replica-exchange-molecular-dynamics-with-distancefield-distance-restraints
#5
Gabor Nagy, Chris Oostenbrink, Jozef Hritz
The 14-3-3 protein family performs regulatory functions in eukaryotic organisms by binding to a large number of phosphorylated protein partners. Whilst the binding mode of the phosphopeptides within the primary 14-3-3 binding site is well established based on the crystal structures of their complexes, little is known about the binding process itself. We present a computational study of the process by which phosphopeptides bind to the 14-3-3ζ protein. Applying a novel scheme combining Hamiltonian replica exchange molecular dynamics and distancefield restraints allowed us to map and compare the most likely phosphopeptide-binding pathways to the 14-3-3ζ protein...
2017: PloS One
https://www.readbyqxmd.com/read/28727574/flexible-ligated-ruthenium-ii-self-assemblies-sensitizes-glioma-tumor-initiating-cells-in-vitro
#6
Palani Elumalai, Neha Kaushik, Dong Hwan Kim, Hyunuk Kim, Su Jae Lee, Eun Ha Choi, Ki-Whan Chi, Nagendra Kumar Kaushik
The tumorigenic potentials of residual cancer stem-like cells within tumors represent limitations of current cancer therapies. Here, the authors describe the effects of synthesized flexible, ligated, supramolecular self-assembled chair type tetranuclear ruthenium (II) metallacycles (2-5) on glioblastoma and glioma stem like cells. These self-assemblies were observed to be selectively toxic to glioma cells and CD133-positive glioma stem like cells population. Of the self-assembled compounds tested, metallacycle 4 more efficiently induced glioma stem like cells death within a brain cancer cell population and simultaneously inhibited the formation of free-floating gliospheres by reducing the sphere size...
July 5, 2017: Oncotarget
https://www.readbyqxmd.com/read/28727563/a-low-power-high-dynamic-range-receiver-system-for-in-probe-3-d-ultrasonic-imaging
#7
Hourieh Attarzadeh, Ye Xu, Trond Ytterdal
In this paper, a dual-mode low-power, high dynamic-range receiver circuit is designed for the interface with a capacitive micromachined ultrasonic transducer. The proposed ultrasound receiver chip enables the development of an in-probe digital beamforming imaging system. The flexibility of having two operation modes offers a high dynamic range with minimum power sacrifice. A prototype of the chip containing one receive channel, with one variable transimpedance amplifier (TIA) and one analog to digital converter (ADC) circuit is implemented...
July 18, 2017: IEEE Transactions on Biomedical Circuits and Systems
https://www.readbyqxmd.com/read/28727557/integrating-flexible-sensor-and-virtual-self-organizing-dc-grid-model-with-cloud-computing-for-blood-leakage-detection-during-hemodialysis
#8
Ping-Tzan Huang, Tai-Lang Jong, Chien-Ming Li, Wei-Ling Chen, Chia-Hung Lin
Blood leakage and blood loss are serious complications during hemodialysis. From the hemodialysis survey reports, these life-threatening events occur to attract nephrology nurses and patients themselves. When the venous needle and blood line are disconnected, it takes only a few minutes for an adult patient to lose over 40% of his / her blood, which is a sufficient amount of blood loss to cause the patient to die. Therefore, we propose integrating a flexible sensor and self-organizing algorithm to design a cloud computing-based warning device for blood leakage detection...
July 18, 2017: IEEE Transactions on Biomedical Circuits and Systems
https://www.readbyqxmd.com/read/28727555/tid-introducing-and-benchmarking-an-event-delivery-system-for-brain-computer-interfaces
#9
Christian Breitwieser, Michele Tavella, Martijn Schreuder, Febo Cincotti, Robert Leeb, Gernot R Muller-Putz
In this paper, we present and analyze an event distribution system for brain-computer interfaces (BCIs). Events are commonly used to mark and describe incidents during an experiment and are therefore critical for later data analysis or immediate real-time processing. The presented approach, called TiD (Tools for brain-computer interaction - interface D), delivers messages in XML format via a bus-like system using TCP (transmission control protocol) connections or shared memory. A dedicated server dispatches TiD messages to distributed or local clients...
July 18, 2017: IEEE Transactions on Neural Systems and Rehabilitation Engineering
https://www.readbyqxmd.com/read/28727441/adsorption-induced-changes-of-human-hemoglobin-on-ferric-pyrophosphate-nanoparticle-surface-probed-by-isotope-exchange-mass-spectrometry-an-implication-on-structure-function-correlation
#10
Bindu Y Srinivasu, Beena Bose, Gopa Mitra, Anura V Kurpad, Amit Kumar Mandal
In general, proteins in the biological system interact with nanoparticles (NPs) via adsorption on the particle surface. Understanding the adsorption at molecular level is crucial to explore NP-protein interactions. The increasing concerns about the risk to human health on NP exposure have been explored through the discovery of a handful protein biomarkers and biochemical analysis. However, detailed information on structural perturbation and associated functional changes of proteins on interaction with NPs is limited...
July 20, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28727421/shallow-representation-learning-via-kernel-pca-improves-qsar-modelability
#11
Stefano E Rensi, Russ B Altman
Linear models offer a robust, flexible, and computationally efficient set of tools for modeling quantitative structure activity relationships (QSAR), but have been eclipsed in performance by non-linear methods. Support vector machines (SVMs) and neural networks are currently among the most popular and accurate QSAR methods because they learn new representations of the data that greatly improve modelability. In this work we use shallow representation learning to improve the accuracy of L1 regularized logistic regression (LASSO) and meet the performance of Tanimoto SVM...
July 20, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28727411/one-step-synthesis-of-anti-oxidative-graphene-wrapped-copper-nanoparticles-on-flexible-substrates-for-electronic-and-electro-catalytic-applications
#12
Chi-Ang Tseng, Chiao-Chen Chen, Rajesh Kumar Ulaganathan, Chuan-Pei Lee, Hsu-Cheng Chiang, Chin-Fu Chang, Yit-Tsong Chen
In this study, we report a novel, one-step synthesis method to fabricate multi-layer graphene (MLG)-wrapped copper nanoparticles (CuNPs) directly on various substrates (e.g., polyimide film (PI), carbon cloth (CC)) or Si wafer (Si)). The electrical resistivities of the pristine MLG-CuNPs/PI and MLG-CuNPs/Si were measured 1.7 × 10(-6) and 1.4 × 10(-6) Ω·m, respectively, of which both values are ~100-fold lower than earlier reports. The MLG shell could remarkably prevent the Cu nanocore from serious damages after MLG-CuNPs being exposed to various harsh conditions...
July 20, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28727236/structural-and-electronic-flexibility-in-hydrides-of-zintl-phases-with-tetrel-hydrogen-and-tetrel-tetrel-bonds
#13
Henry Auer, Holger Kohlmann
The hydrogenation of Zintl phases enables the formation of new structural entities with main group element-hydrogen bonds in the solid state. The hydrogenation of SrSi, BaSi and BaGe yields the hydrides SrSiH5/3-x, BaSiH5/3-x and BaGeH5/3-x, whose crystal structures were solved by a combination of X-ray, neutron and electron diffraction. Layers of connected HSr4 (HBa4) tetrahedra containing hydride ions alternate with layers of infinite single- and double-chain polyanions, where hydrogen atoms are covalently bound to silicon and germanium...
July 20, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28727184/early-warning-systems-and-rapid-response-to-the-deteriorating-patient-in-hospital-a-systematic-realist-review
#14
REVIEW
Jennifer McGaughey, Peter O'Halloran, Sam Porter, Bronagh Blackwood
AIM: To determine the Rapid Response System programme theory and investigate how the mechanisms of implementation and the characteristics of context combine to enable or constrain the implementation of Rapid Response Systems and the achievement of desired outcomes. BACKGROUND: Rapid Response Systems have been implemented internationally to improve the recognition and management of patient deterioration, reduce the need for cardiopulmonary resuscitation and improve patient outcomes...
July 20, 2017: Journal of Advanced Nursing
https://www.readbyqxmd.com/read/28727138/partial-diel-migration-a-facultative-migration-underpinned-by-long-term-inter-individual-variation
#15
Philip M Harrison, Lee F G Gutowsky, Eduardo G Martins, David A Patterson, Steven J Cooke, Michael Power
The variations in migration that comprise partial diel migrations, putatively occur entirely as a consequence of behavioural flexibility. However, seasonal partial migrations are increasingly recognised to be mediated by a combination of reversible plasticity in response to environmental variation and individual variation due to genetic and environmental effects. Here, we test the hypothesis that while partial diel migration heterogeneity occurs primarily due to short-term within-individual flexibility in behaviour, long-term individual differences in migratory behaviour also underpin this migration variation...
June 14, 2017: Journal of Animal Ecology
https://www.readbyqxmd.com/read/28727103/effects-of-dietary-calcium-fructoborate-supplementation-on-joint-comfort-and-flexibility-and-serum-inflammatory-markers-in-dogs-with-osteoarthritis
#16
A K Price, M R C de Godoy, T A Harper, K E Knap, S Joslyn, Z Pietrzkowski, B K Cross, K B Detweiler, K S Swanson
Our objective was to evaluate the short-term effects of calcium fructoborate (CFB) on gait, joint range of motion, serum inflammatory markers, and owner perception of pain in client-owned dogs. We used 59 osteoarthritic dogs with impairment, with dogs being randomly assigned to 4 treatments: placebo (60 mg fructose; = 15), low dose (69 mg CFB; = 14), high dose (127 mg CFB; = 14), or combination (69 mg CFB, 500 mg glucosamine hydrochloride and 200 mg chondroitin sulfate; = 16). Dogs up to 22.9 kg received 1 capsule/d, while dogs weighing 23 to 50 kg received 2 capsules/d...
July 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28727069/system-dynamics-modeling-in-designing-breeding-schemes-the-case-of-menz-sheep-in-ethiopian-highlands
#17
K T Gebre, M Wurzinger, S Gizaw, A Haile, B Rischkowsky, T Getachew, J Sölkner
A comprehensive dynamic simulation model was developed to describe a community-based breeding program for the Menz sheep population of Ethiopia. Selection of male and female animals based on their own and maternal performance was simulated. The breeding goal traits were 6-mo weight, preweaning survival, and fertility rate. The model input data were obtained from the flock book, questionnaires, and references. The simulation model used a mix of deterministic and stochastic procedures to model the complex system...
June 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/28726969/a-fiber-asymmetric-supercapacitor-based-on-feooh-ppy-on-carbon-fibers-as-an-anode-electrode-with-high-volumetric-energy-density-for-wearable-applications
#18
Xuefei Gong, Shaohui Li, Pooi See Lee
Fiber supercapacitors are promising energy storage devices for wearable applications. However, the fiber supercapacitors are currently limited by the mediocre capacitance performances due to the use of typical carbon materials as the anode, sacrificing the volumetric energy density of the whole device. In addition, the inability to undergo washable cycles and poor self-discharge rate prevents the fiber-shaped supercapacitors from being a true energy textile and affects their practicability. Hence, the porous anode electrode FeOOH/PPy@CF has been firstly prepared with a high volumetric capacitance of 30...
July 20, 2017: Nanoscale
https://www.readbyqxmd.com/read/28726939/a-super-flexible-and-custom-shaped-graphene-heater
#19
Tian-Yu Zhang, Hai-Ming Zhao, Dan-Yang Wang, Qian Wang, Yu Pang, Ning-Qin Deng, Hui-Wen Cao, Yi Yang, Tian-Ling Ren
In this paper, we fabricate a graphene film heater through laser reduction on graphene oxide, which is a two-step process. The electrothermal performance of the graphene heater can be adjusted by the laser energy density. While the applied voltage is 18 V, the graphene heater reaches a steady-state temperature of 247.3 °C within 20 s. After the graphene heater is folded in half 100 times, its output temperature remains to be precisely controlled by the input power and the temperature distribution is uniform...
July 20, 2017: Nanoscale
https://www.readbyqxmd.com/read/28726921/molecular-dynamics-simulations-and-in-vitro-analysis-of-the-crmp2-thiol-switch
#20
Daniel Möller, Manuela Gellert, Walter Langel, Christopher Horst Lillig
The collapsin response mediator protein CRMP2 (gene: DPYSL2) is crucial for neuronal development. The homotetrameric CRMP2 complex is regulated via two mechanisms: first by phosphorylation and second by the reduction and oxidation of the Cys504 residues of two adjacent subunits. Here, we have analysed the effects of this redox switch on the protein in vitro combined with force field molecular dynamics (MD). Earlier X-ray data reveal the structure of the rigid body of the molecule but lack the flexible C-terminus with the important sites for phosphorylation and redox regulation...
July 20, 2017: Molecular BioSystems
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