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https://www.readbyqxmd.com/read/29141608/traveler-a-tool-for-template-based-rna-secondary-structure-visualization
#1
Richard Elias, David Hoksza
BACKGROUND: Visualization of RNA secondary structures is a complex task, and, especially in the case of large RNA structures where the expected layout is largely habitual, the existing visualization tools often fail to produce suitable visualizations. This led us to the idea to use existing layouts as templates for the visualization of new RNAs similarly to how templates are used in homology-based structure prediction. RESULTS: This article introduces Traveler, a software tool enabling visualization of a target RNA secondary structure using an existing layout of a sufficiently similar RNA structure as a template...
November 15, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/29140533/come-together-human-avatar-on-line-interactions-boost-joint-action-performance-in-apraxic-patients
#2
Matteo Candidi, Lucia M Sacheli, Vanessa Era, Loredana Canzano, Gaetano Tieri, Salvatore M Aglioti
Limb apraxia (LA) is a high-order motor disorder linked to left-hemisphere damage. It is characterized by defective execution of purposeful actions upon delayed imitation, or verbal command when the actions are performed in isolated, non-naturalistic, conditions. Whether interpersonal interactions provide social affordances that activate neural resources different from those requested by individual action execution, which may improve LA performance, is unknown. To fill this gap, we measured interaction performance, behavioral and kinematic indexes of left-brain damaged patients with/without LA in a social reach-to-grasp task involving two different degrees of spatio-temporal interactivity with an avatar...
November 1, 2017: Social Cognitive and Affective Neuroscience
https://www.readbyqxmd.com/read/29138480/nitric-oxide-contributes-to-high-salt-perception-in-a-blood-sucking-insect-model
#3
Agustina Cano, Gina Pontes, Valeria Sfara, Diego Anfossi, Romina B Barrozo
In all organisms, salts produce either appetitive or aversive responses depending on the concentration. While low-salt concentration in food elicits positive responses to ingest, high-salt triggers aversion. Still the mechanisms involved in this dual behavior have just started to be uncovered in some organisms. In Rhodnius prolixus, using pharmacological and behavioral assays, we demonstrated that upon high-salt detection in food a nitric oxide (NO) dependent cascade is activated. This activation involves a soluble guanylate cyclase (sGC) and the production of cyclic guanosine monophosphate (cGMP)...
November 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29137828/differentiating-between-clinical-and-behavioral-phenotypes-in-first-episode-psychosis-during-maintenance-of-visuospatial-working-memory
#4
Maria Jalbrzikowski, Vishnu P Murty, Patricia L Stan, Jusmita Saifullan, Daniel Simmonds, William Foran, Beatriz Luna
INTRODUCTION: We probed the neural basis of working memory in individuals with first episode of psychosis (FEP) and assessed how these neural abnormalities are associated with behavioral performance and/or core to psychosis pathophysiology. METHODS: FEP (N=35) and matched controls (N=25) performed a visuospatial working memory task during fMRI acquisition. We isolated neural activity during the maintenance period and examined neural activity within regions typically engaged during a working memory task...
November 11, 2017: Schizophrenia Research
https://www.readbyqxmd.com/read/29137808/geometric-and-dosimetric-accuracy-of-dynamic-tumor-tracking-during-volumetric-modulated-arc-therapy-using-a-gimbal-mounted-linac
#5
Tomohiro Ono, Yuki Miyabe, Kunio Takahashi, Mami Akimoto, Nobutaka Mukumoto, Yoshitomo Ishihara, Mitsuhiro Nakamura, Takashi Mizowaki, Masahiro Hiraoka
PURPOSE: The aim was to examine the feasibility of a dynamic tumor-tracking volumetric modulated arc therapy (DTT-VMAT) technique using a gimbal-mounted linac and assess its positional, mechanical and dosimetric accuracy. MATERIALS AND METHODS: DTT-VMAT was performed using a surrogated signal-based technique. The positional tracking accuracy was evaluated as the difference between the predicted and detected target positions for various wave patterns. Mechanical accuracy measurements included gantry, multileaf collimator (MLC) and gimbal positions...
November 11, 2017: Radiotherapy and Oncology: Journal of the European Society for Therapeutic Radiology and Oncology
https://www.readbyqxmd.com/read/29134447/should-i-fetch-one-or-the-other-a-study-on-dogs-on-the-object-choice-in-the-bimodal-contrasting-paradigm
#6
Anna Scandurra, Alessandra Alterisio, Massimo Aria, Rosaria Vernese, Biagio D'Aniello
The present study assessed how dogs weigh gestural versus verbal information communicated to them by humans in transitive actions. The dogs were trained by their owners to fetch an object under three conditions: a bimodal congruent condition characterized by using gestures and voices simultaneously; a unimodal gestural condition characterized by using only gestures; and a unimodal verbal condition characterized by using only voices. An additional condition, defined as a bimodal incongruent condition, was later added, in which the gesture contrasted with the verbal command, that is, the owner indicated an object while pronouncing the name of the other object visible to dogs...
November 13, 2017: Animal Cognition
https://www.readbyqxmd.com/read/29134143/eeg-sensorimotor-rhythms-variation-and-functional-connectivity-measures-during-motor-imagery-linear-relations-and-classification-approaches
#7
Carlos A Stefano Filho, Romis Attux, Gabriela Castellano
Hands motor imagery (MI) has been reported to alter synchronization patterns amongst neurons, yielding variations in the mu and beta bands' power spectral density (PSD) of the electroencephalography (EEG) signal. These alterations have been used in the field of brain-computer interfaces (BCI), in an attempt to assign distinct MI tasks to commands of such a system. Recent studies have highlighted that information may be missing if knowledge about brain functional connectivity is not considered. In this work, we modeled the brain as a graph in which each EEG electrode represents a node...
2017: PeerJ
https://www.readbyqxmd.com/read/29133968/effects-of-laser-therapy-and-grimaldi-s-muscle-shortening-manoeuvre-on-motor-control-of-subjects-with-incomplete-spinal-cord-injuries
#8
Diego Longo, Leonardo Longo, Paolo Lippi, Giulio Cherubini, Vanessa Mangé
Background and Objectives: From year 2003 we treated positively 251 patients with Traumatic Spinal Cord Injuries (TSCI), using Non-Surgical Laser Therapy (NSLT). In order to increase muscle strength, we have also started using a physical therapy practice called Grimaldi's Muscle Shortening Manoeuvre (GMSM)The goal of our study is to obtain objective data suggesting the real effectiveness of the association of these two treatments. Study Design and Methods: In 2015, 10 patients with incomplete TSCI were enrolled...
September 30, 2017: Laser Therapy
https://www.readbyqxmd.com/read/29132318/bugmat-and-findneighbour-command-line-and-server-applications-for-investigating-bacterial-relatedness
#9
Oriol Mazariegos-Canellas, Trien Do, Tim Peto, David W Eyre, Anthony Underwood, Derrick Crook, David H Wyllie
BACKGROUND: Large scale bacterial sequencing has made the determination of genetic relationships within large sequence collections of bacterial genomes derived from the same microbial species an increasingly common task. Solutions to the problem have application to public health (for example, in the detection of possible disease transmission), and as part of divide-and-conquer strategies selecting groups of similar isolates for computationally intensive methods of phylogenetic inference using (for example) maximal likelihood methods...
November 13, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/29131742/the-structure-and-acquisition-of-sensorimotor-maps
#10
Floris T van Vugt, David J Ostry
One of the puzzles of learning to talk or play a musical instrument is how we learn which movement produces a particular sound: an audiomotor map. Existing research has used mappings that are already well learned such as controlling a cursor using a computer mouse. By contrast, the acquisition of novel sensorimotor maps was studied by having participants learn arm movements to auditory targets. These sounds did not come from different directions but, like speech, were only distinguished by their frequencies...
November 13, 2017: Journal of Cognitive Neuroscience
https://www.readbyqxmd.com/read/29131538/flexible-and-accessible-automated-operation-of-miniature-chromatography-columns-on-a-liquid-handling-station
#11
Spyridon Konstantinidis, Hai-Yuan Goh, José Mauricio Martin Bufájer, Paul de Galbert, Maria Parau, Ajoy Velayudhan
The High Throughput (HT) investigation of chromatographic separations is an important element of downstream bioprocess development due to the importance of chromatography as a technique for achieving stringent regulatory requirements on product purity. Various HT formats for chromatography exist, but the miniature column approach has characteristics resembling large scale packed bed column chromatography the most. The operation of such columns on robotic stations can be automated, but this is not always a straightforward procedure; the robotic manipulations are highly dependent on the settings of each experiment and the standard commands of the supporting software may not provide readily the required flexibility and accessibility for 'plug and play' functionality...
November 13, 2017: Biotechnology Journal
https://www.readbyqxmd.com/read/29131192/wide-area-mapping-of-liquid-crystal-devices-with-passive-and-active-command-layers
#12
Thomas Bennett, Matthew Proctor, Jon Forster, Eleni Perivolari, Nina Podoliak, Matthew Sugden, Roger Kirke, Thomas Regrettier, Thomas Heiser, Malgosia Kaczmarek, Giampaolo D'Alessandro
We track the non-uniformity of a wide area liquid crystal device using multiple cross-polarized intensity measurements. They give us not only accurate estimates of the core physical liquid crystal parameters, such as elastic constants, but also spatial maps of the device properties, including the liquid crystal thickness and pretilt angle. A bootstrapping statistical analysis, coupled with the multiple measurements, gives us reliable error bars on all the measured parameters.
November 10, 2017: Applied Optics
https://www.readbyqxmd.com/read/29129506/clinical-insights-addressing-command-hallucinations
#13
Michelle L West
No abstract text is available yet for this article.
November 9, 2017: Schizophrenia Research
https://www.readbyqxmd.com/read/29127282/nanoscale-design-of-polarization-in-ultrathin-ferroelectric-heterostructures
#14
Gabriele De Luca, Nives Strkalj, Sebastian Manz, Corinne Bouillet, Manfred Fiebig, Morgan Trassin
The success of oxide electronics depends on the ability to design functional properties such as ferroelectricity with atomic accuracy. However, despite tremendous advances in ferroelectric heterostructures, the development towards multilevel architectures with precise layer-by-layer command over the polarization is impeded by the lack of continuous control over the balance of electrostatics, strain, chemistry and film thickness during growth. Moreover, the polarization in the deeper layers becomes inaccessible when these are buried by the ongoing deposition...
November 10, 2017: Nature Communications
https://www.readbyqxmd.com/read/29122205/enhancing-the-effectiveness-of-human-robot-teaming-with-a-closed-loop-system
#15
Grace Teo, Lauren Reinerman-Jones, Gerald Matthews, James Szalma, Florian Jentsch, Peter Hancock
With technological developments in robotics and their increasing deployment, human-robot teams are set to be a mainstay in the future. To develop robots that possess teaming capabilities, such as being able to communicate implicitly, the present study implemented a closed-loop system. This system enabled the robot to provide adaptive aid without the need for explicit commands from the human teammate, through the use of multiple physiological workload measures. Such measures of workload vary in sensitivity and there is large inter-individual variability in physiological responses to imposed taskload...
February 2018: Applied Ergonomics
https://www.readbyqxmd.com/read/29121293/brain-functional-connectivity-differentiates-dexmedetomidine-from-propofol-and-natural-sleep
#16
P Guldenmund, A Vanhaudenhuyse, R D Sanders, J Sleigh, M A Bruno, A Demertzi, M A Bahri, O Jaquet, J Sanfilippo, K Baquero, M Boly, J F Brichant, S Laureys, V Bonhomme
Background: We used functional connectivity measures from brain resting state functional magnetic resonance imaging to identify human neural correlates of sedation with dexmedetomidine or propofol and their similarities with natural sleep. Methods: Connectivity within the resting state networks that are proposed to sustain consciousness generation was compared between deep non-rapid-eye-movement (N3) sleep, dexmedetomidine sedation, and propofol sedation in volunteers who became unresponsive to verbal command...
October 1, 2017: British Journal of Anaesthesia
https://www.readbyqxmd.com/read/29121278/frontal-alpha-delta-eeg-does-not-preclude-volitional-response-during-anaesthesia-prospective-cohort-study-of-the-isolated-forearm-technique
#17
A L Gaskell, D F Hight, J Winders, G Tran, A Defresne, V Bonhomme, A Raz, J W Sleigh, R D Sanders
Background: The isolated forearm test (IFT) is the gold standard test of connected consciousness (awareness of the environment) during anaesthesia. The frontal alpha-delta EEG pattern (seen in slow wave sleep) is widely held to indicate anaesthetic-induced unconsciousness. A priori we proposed that one responder with the frontal alpha-delta EEG pattern would falsify this concept. Methods: Frontal EEG was recorded in a subset of patients from three centres participating in an international multicentre study of IFT responsiveness following tracheal intubation...
October 1, 2017: British Journal of Anaesthesia
https://www.readbyqxmd.com/read/29121165/perf-an-exhaustive-algorithm-for-ultra-fast-and-efficient-identification-of-microsatellites-from-large-dna-sequences
#18
Akshay Kumar Avvaru, Divya Tej Sowpati, Rakesh Kumar Mishra
Motivation: Microsatellites or Simple Sequence Repeats (SSRs) are short tandem repeats of DNA motifs present in all genomes. They have long been used for a variety of purposes in the areas of population genetics, genotyping, marker-assisted selection, and forensics. Numerous studies have highlighted their functional roles in genome organization and gene regulation. Though several tools are currently available to identify SSRs from genomic sequences, they have significant limitations. Results: We present a novel algorithm called PERF for extremely fast and comprehensive identification of microsatellites from DNA sequences of any size...
November 7, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29120311/alberta-s-provincial-take-home-naloxone-program-a-multi-sectoral-and-multi-jurisdictional-response-to-overdose
#19
Lisa K Freeman, Stacey Bourque, Nick Etches, Karin Goodison, Claire O'Gorman, Kay Rittenbach, Christopher A Sikora, Mark Yarema
SETTING: Alberta is a prairie province located in western Canada, with a population of approximately 4.3 million. In 2016, 363 Albertans died from apparent drug overdoses related to fentanyl, an opioid 50-100 times more toxic than morphine. This surpassed the number of deaths from motor vehicle collisions and homicides combined. INTERVENTION: Naloxone is a safe, effective, opioid antagonist that may quickly reverse an opioid overdose. In July 2015, a committee of community-based harm reduction programs in Alberta implemented a geographically restricted take-home naloxone (THN) program...
November 9, 2017: Canadian Journal of Public Health. Revue Canadienne de Santé Publique
https://www.readbyqxmd.com/read/29119511/a-method-for-cross-species-visualization-and-analysis-of-rna-sequence-data
#20
Stephen A Ramsey
In this methods article, I describe a computational workflow for cross-species visualization and comparison of mRNA-seq transcriptome profiling data. The workflow is based on gene set variation analysis (GSVA) and is illustrated using commands in the R programming language. I provide a complete step-by-step procedure for the workflow using mRNA-seq data sets from dog and human bladder cancer as an example.
2018: Methods in Molecular Biology
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