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https://www.readbyqxmd.com/read/29238826/a-re-engineered-software-interface-and-workflow-for-the-open-source-simvascular-cardiovascular-modeling-package
#1
Hongzhi Lan, Adam Updegrove, Nathan Wilson, Gabriel D Maher, Shawn C Shadden, Alison Marsden
Patient-specific simulation plays an important role in cardiovascular disease research, diagnosis, surgical planning and medical device design, as well as education in cardiovascular biomechanics. SimVascular is an open-source software package encompassing an entire cardiovascular modeling and simulation pipeline from image segmentation, 3D solid modeling, and mesh generation, to patient-specific simulation and analysis. SimVascular is widely used for cardiovascular basic science and clinical research as well as education, following increased adoption by users and development of a GATEWAY web portal to facilitate educational access...
December 13, 2017: Journal of Biomechanical Engineering
https://www.readbyqxmd.com/read/29236707/translating-statistical-species-habitat-models-to-interactive-decision-support-tools
#2
Lyndsie S Wszola, Victoria L Simonsen, Erica F Stuber, Caitlyn R Gillespie, Lindsey N Messinger, Karie L Decker, Jeffrey J Lusk, Christopher F Jorgensen, Andrew A Bishop, Joseph J Fontaine
Understanding species-habitat relationships is vital to successful conservation, but the tools used to communicate species-habitat relationships are often poorly suited to the information needs of conservation practitioners. Here we present a novel method for translating a statistical species-habitat model, a regression analysis relating ring-necked pheasant abundance to landcover, into an interactive online tool. The Pheasant Habitat Simulator combines the analytical power of the R programming environment with the user-friendly Shiny web interface to create an online platform in which wildlife professionals can explore the effects of variation in local landcover on relative pheasant habitat suitability within spatial scales relevant to individual wildlife managers...
2017: PloS One
https://www.readbyqxmd.com/read/29236552/website-designs-for-communicating-about-chemicals-in-cigarette-smoke
#3
Allison J Lazard, M Justin Byron, Huyen Vu, Ellen Peters, Annie Schmidt, Noel T Brewer
The Family Smoking Prevention and Tobacco Control Act requires the US government to inform the public about the quantities of toxic chemicals in cigarette smoke. A website can accomplish this task efficiently, but the site's user interface must be usable to benefit the general public. We conducted online experiments with national convenience samples of 1,451 US adult smokers and nonsmokers to examine the impact of four interface display elements: the chemicals, their associated health effects, quantity information, and a visual risk indicator...
December 13, 2017: Health Communication
https://www.readbyqxmd.com/read/29236042/single-channel-eeg-artifact-identification-using-two-dimensional-multi-resolution-analysis
#4
Mojtaba Taherisadr, Omid Dehzangi, Hossein Parsaei
As a diagnostic monitoring approach, electroencephalogram (EEG) signals can be decoded by signal processing methodologies for various health monitoring purposes. However, EEG recordings are contaminated by other interferences, particularly facial and ocular artifacts generated by the user. This is specifically an issue during continuous EEG recording sessions, and is therefore a key step in using EEG signals for either physiological monitoring and diagnosis or brain-computer interface to identify such artifacts from useful EEG components...
December 13, 2017: Sensors
https://www.readbyqxmd.com/read/29234984/bober-web-interface-to-the-base-of-bioisosterically-exchangeable-replacements
#5
Samo Lešnik, Blaž Škrlj, Nika Eržen, Urban Bren, Stanislav Gobec, Janez Konc, Dušanka Janežič
We describe a novel freely available web server Base of Bioisosterically Exchangeable Replacements (BoBER), which implements an interface to a database of bioisosteric and scaffold hopping replacements. Bioisosterism and scaffold hopping are key concepts in drug design and optimization, and can be defined as replacements of biologically active compound's fragments with other fragments to improve activity, reduce toxicity, change bioavailability or to diversify the scaffold space. Our web server enables fast and user-friendly searches for bioisosteric and scaffold replacements which were obtained by mining the whole Protein Data Bank...
December 12, 2017: Journal of Cheminformatics
https://www.readbyqxmd.com/read/29233169/an-evidence-based-gamified-mhealth-intervention-for-overweight-young-adults-with-maladaptive-eating-habits-study-protocol-for-a-randomized-controlled-trial
#6
Ioana R Podina, Liviu A Fodor, Ana Cosmoiu, Rareș Boian
BACKGROUND: Cognitive behavior therapy (CBT) is the first-line of treatment for overweight and obesity patients whose problems originate in maladaptive eating habits (e.g., emotional eating). However, in-person CBT is currently difficult to access by large segments of the population. The proposed SIGMA intervention (i.e., the Self-help, Integrated, and Gamified Mobile-phone Application) is a mHealth intervention based on CBT principles. It specifically targets overweight young adults with underlying maladaptive behaviors and cognitions regarding food...
December 12, 2017: Trials
https://www.readbyqxmd.com/read/29230356/sdmtoolbox-2-0-the-next-generation-python-based-gis-toolkit-for-landscape-genetic-biogeographic-and-species-distribution-model-analyses
#7
Jason L Brown, Joseph R Bennett, Connor M French
SDMtoolbox 2.0 is a software package for spatial studies of ecology, evolution, and genetics. The release of SDMtoolbox 2.0 allows researchers to use the most current ArcGIS software and MaxEnt software, and reduces the amount of time that would be spent developing common solutions. The central aim of this software is to automate complicated and repetitive spatial analyses in an intuitive graphical user interface. One core tenant facilitates careful parameterization of species distribution models (SDMs) to maximize each model's discriminatory ability and minimize overfitting...
2017: PeerJ
https://www.readbyqxmd.com/read/29229405/instrumented-socket-inserts-for-sensing-interaction-at-the-limb-socket-interface
#8
Eric C Swanson, Jake B McLean, Katheryn J Allyn, Christian B Redd, Joan E Sanders
The objective of this research was to investigate a strategy for designing and fabricating computer-manufactured socket inserts that were embedded with sensors for field monitoring of limb-socket interactions of prosthetic users. An instrumented insert was fabricated for a single trans-tibial prosthesis user that contained three sensor types (proximity sensor, force sensing resistor, and inductive sensor), and the system was evaluated through a sequence of laboratory clinical tests and two days of field use...
December 8, 2017: Medical Engineering & Physics
https://www.readbyqxmd.com/read/29229278/the-impact-of-hoist-sling-fabrics-on-interface-pressure-whilst-sitting-in-healthy-volunteers-and-wheelchair-users-a-comparative-study
#9
J Webb, M Twiste, L A Walton, P Hogg
AIM OF THE STUDY: To evaluate the effect of three sling fabrics on gluteal interface pressure whilst sitting in a population of wheelchair users and to compare these to data previously collected in a pilot study with a healthy population. MATERIALS AND METHODS: A repeated measures experimental design was used with 32 adult wheelchair users (15 women, 17 men). Healthy population pilot study consisted of 61 participants (51 women, 10 men) recruited from staff and students at The University of Salford...
December 6, 2017: Journal of Tissue Viability
https://www.readbyqxmd.com/read/29226007/houston-methodist-variant-viewer-an-application-to-support-clinical-laboratory-interpretation-of-next-generation-sequencing-data-for-cancer
#10
Paul A Christensen, Yunyun Ni, Feifei Bao, Heather L Hendrickson, Michael Greenwood, Jessica S Thomas, S Wesley Long, Randall J Olsen
Introduction: Next-generation-sequencing (NGS) is increasingly used in clinical and research protocols for patients with cancer. NGS assays are routinely used in clinical laboratories to detect mutations bearing on cancer diagnosis, prognosis and personalized therapy. A typical assay may interrogate 50 or more gene targets that encompass many thousands of possible gene variants. Analysis of NGS data in cancer is a labor-intensive process that can become overwhelming to the molecular pathologist or research scientist...
2017: Journal of Pathology Informatics
https://www.readbyqxmd.com/read/29222625/using-patient-feedback-to-optimize-the-design-of-a-certolizumab-pegol-electromechanical-self-injection-device-insights-from-human-factors-studies
#11
Barbara Domańska, Oliver Stumpp, Steven Poon, Serkan Oray, Irina Mountian, Clovis Pichon
INTRODUCTION: We incorporated patient feedback from human factors studies (HFS) in the patient-centric design and validation of ava®, an electromechanical device (e-Device) for self-injecting the anti-tumor necrosis factor certolizumab pegol (CZP). METHODS: Healthcare professionals, caregivers, healthy volunteers, and patients with rheumatoid arthritis, psoriatic arthritis, ankylosing spondylitis, or Crohn's disease participated in 11 formative HFS to optimize the e-Device design through intended user feedback; nine studies involved simulated injections...
December 8, 2017: Advances in Therapy
https://www.readbyqxmd.com/read/29220327/self-paced-operation-of-a-wheelchair-based-on-a-hybrid-brain-computer-interface-combining-motor-imagery-and-p300-potential
#12
Yang Yu, Zongtan Zhou, Yadong Liu, Jun Jiang, Erwei Yin, Nannan Zhang, Zhihua Wang, Yaru Liu, Xingjie Wu, Dewen Hu
This paper presents a hybrid brain-computer interface (BCI) that combines motor imagery (MI) and P300 potential for the asynchronous operation of a brain-controlled wheelchair whose design is based on a Mecanum wheel. This paradigm is completely user-centric. By sequentially performing MI tasks or paying attention to P300 flashing, the user can use eleven functions to control the wheelchair: move forward/backward, move left/right, move left45/right45, accelerate/decelerate, turn left/right, and stop. The practicality and effectiveness of the proposed approach were validated in eight subjects, all of whom achieved good performance...
December 2017: IEEE Transactions on Neural Systems and Rehabilitation Engineering
https://www.readbyqxmd.com/read/29218401/using-multimedia-information-and-communication-technology-ict-to-provide-added-value-to-reminiscence-therapy-for-people-with-dementia-lessons-learned-from-three-field-studies
#13
REVIEW
Alexander Bejan, Ramazan Gündogdu, Katherina Butz, Nadine Müller, Christophe Kunze, Peter König
BACKGROUND: In the care of people with dementia (PwD), occupational therapies and activities aiming at maintaining the quality of life of PwD, such as reminiscence therapy (RT), are taking on a more and more important role. Information and communication technology (ICT) has the potential to improve and to facilitate RT by facilitating access to and selection of biographical information and related contents or by providing novel multimodal interaction forms to trigger memories; however, interactive multimedia technology is barely used in practice...
December 7, 2017: Zeitschrift Für Gerontologie und Geriatrie
https://www.readbyqxmd.com/read/29218331/justpoint-identifying-colors-with-a-natural-user-interface
#14
Sergio Mascetti, Silvia D'Acquisto, Andrea Gerino, Mattia Ducci, Cristian Bernareggi, James M Coughlan
People with severe visual impairments usually have no way of identifying the colors of objects in their environment. While existing smartphone apps can recognize colors and speak them aloud, they require the user to center the object of interest in the camera's field of view, which is challenging for many users. We developed a smartphone app to address this problem that reads aloud the color of the object pointed to by the user's fingertip, without confusion from background colors. We evaluated the app with nine people who are blind, demonstrating the app's effectiveness and suggesting directions for improvements in the future...
October 2017: ASSETS Association for Computing Machinery
https://www.readbyqxmd.com/read/29218324/intellicount-high-throughput-quantification-of-fluorescent-synaptic-protein-puncta-by-machine-learning
#15
J A Fantuzzo, V R Mirabella, A H Hamod, R P Hart, J D Zahn, Z P Pang
Synapse formation analyses can be performed by imaging and quantifying fluorescent signals of synaptic markers. Traditionally, these analyses are done using simple or multiple thresholding and segmentation approaches or by labor-intensive manual analysis by a human observer. Here, we describe Intellicount, a high-throughput, fully-automated synapse quantification program which applies a novel machine learning (ML)-based image processing algorithm to systematically improve region of interest (ROI) identification over simple thresholding techniques...
November 2017: ENeuro
https://www.readbyqxmd.com/read/29217993/hierarchical-clustering-for-multiple-crystal-macromolecular-crystallography-experiments-the-cccluster-program
#16
Gianluca Santoni, Ulrich Zander, Christoph Mueller-Dieckmann, Gordon Leonard, Alexander Popov
This article describes ccCluster, a software providing an intuitive graphical user interface (GUI) and multiple functions to perform hierarchical cluster analysis on multiple crystallographic datasets. The program makes it easier for users to choose, in the case of multi-crystal data collection, those datasets that will be merged together to give good final statistics. It provides a simple GUI to analyse the dendrogram and various options for automated clustering and data merging.
December 1, 2017: Journal of Applied Crystallography
https://www.readbyqxmd.com/read/29217504/challenges-during-implementation-of-a-patient-facing-mobile-app-for-surgical-rehabilitation-feasibility-study
#17
Annie Ys Lau, Kalman Piper, Desmond Bokor, Paige Martin, Victor Sl Lau, Enrico Coiera
BACKGROUND: Translating research into practice, especially the implementation of digital health technologies in routine care, is increasingly important. Yet, there are few studies examining the challenges of implementing patient-facing digital technologies in health care settings. OBJECTIVE: The aim of this study was to report challenges experienced when implementing mobile apps for patients to support their postsurgical rehabilitation in an orthopedic setting. METHODS: A mobile app was tailored to the needs of patients undergoing rotator cuff repair...
December 7, 2017: JMIR Human Factors
https://www.readbyqxmd.com/read/29216772/proteomic-cinderella-customized-analysis-of-bulky-ms-ms-data-in-one-night
#18
Olga Kiseleva, Ekaterina Poverennaya, Alexander Shargunov, Andrey Lisitsa
Proteomic challenges, stirred up by the advent of high-throughput technologies, produce large amount of MS data. Nowadays, the routine manual search does not satisfy the "speed" of modern science any longer. In our work, the necessity of single-thread analysis of bulky data emerged during interpretation of HepG2 proteome profiling results for proteoforms searching. We compared the contribution of each of the eight search engines (X!Tandem, MS-GF[Formula: see text], MS Amanda, MyriMatch, Comet, Tide, Andromeda, and OMSSA) integrated in an open-source graphical user interface SearchGUI ( http://searchgui...
November 13, 2017: Journal of Bioinformatics and Computational Biology
https://www.readbyqxmd.com/read/29216377/peachvar-db-a-curated-collection-of-genetic-variations-for-the-interactive-analysis-of-peach-genome-data
#19
Marco Cirilli, Tiziano Flati, Silvia Gioiosa, Ilario Tagliaferri, Angelo Ciacciulli, Zhongshan Gao, Stefano Gattolin, Filippo Geuna, Francesco Maggi, Paolo Bottoni, Laura Rossini, Daniele Bassi, Tiziana Castrignanò, Giovanni Chillemi
Applying next-generation sequencing (NGS) technologies to species of agricultural interest has the potential to accelerate the understanding and exploration of genetic resources. The storage, availability and maintenance of huge quantities of NGS-generated data remains a major challenge. The PeachVar-DB portal, available at http://hpc-bioinformatics.cineca.it/peach, is an open-source catalogue of genetic variants present in peach (P. persica L. Batsch) and wild-related species of Prunus genera, annotated from 146 samples publicly released on the Sequence Reads Archive (SRA)...
December 4, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/29208903/a-novel-bioreactor-system-for-biaxial-mechanical-loading-enhances-the-properties-of-tissue-engineered-human-cartilage
#20
Christoph Meinert, Karsten Schrobback, Dietmar W Hutmacher, Travis J Klein
The ex vivo engineering of autologous cartilage tissues has the potential to revolutionize the clinical management of joint disorders. Yet, high manufacturing costs and variable outcomes associated with tissue-engineered implants are still limiting their application. To improve clinical outcomes and facilitate a wider use of engineered tissues, automated bioreactor systems capable of enhancing and monitoring neotissues are required. Here, we developed an innovative system capable of applying precise uni- or biaxial mechanical stimulation to developing cartilage neotissues in a tightly controlled and automated fashion...
December 5, 2017: Scientific Reports
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