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Visualization and Diagrams

Will Kew, Ian Goodall, David Clarke, Dušan Uhrín
Scotch Whisky is an important product, both culturally and economically. Chemically, Scotch Whisky is a complex mixture, which comprises thousands of compounds, the nature of which are largely unknown. Here, we present a thorough overview of the chemistry of Scotch Whisky as observed by Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS). Eighty-five whiskies, representing the majority of Scotch Whisky produced and sold, were analyzed by untargeted high-resolution mass spectrometry. Thousands of chemical formulae were assigned for each sample based on parts-per-billion mass accuracy of FT-ICR MS spectra...
October 17, 2016: Journal of the American Society for Mass Spectrometry
Gennady Andrienko, Natalia Andrienko, Georg Fuchs, Jo Wood
Origin-destination (OD) movement data describe moves or trips between spatial locations by specifying the origins, destinations, start, and end times, but not the routes travelled. For studying the spatio-temporal patterns and trends of mass mobility, individual OD moves of many people are aggregated into flows (collective moves) by time intervals. Time-variant flow data pose two difficult challenges for visualization and analysis. First, flows may connect arbitrary locations (not only neighbors), thus making a graph with numerous edge intersections, which is hard to visualize in a comprehensible way...
October 11, 2016: IEEE Transactions on Visualization and Computer Graphics
Trivikram Nallamilli, Srikanth Ragothaman, Madivala G Basavaraj
In this study we explore the self assembly of oppositely charged latex particles at decane water interfaces. Two spreading protocols have been proposed in this context. In the first method oppositely charged particles are mixed prior to spreading at the interface, this is called "premixed-mixtures". In the second protocol negatively charged particles are first spread at the interface at known coverage followed by spreading positively charged particles at known coverage and this is called "sequential-mixtures"...
October 4, 2016: Journal of Colloid and Interface Science
Jiwoong Kim, Min Soo Kim, Andrew Y Koh, Yang Xie, Xiaowei Zhan
BACKGROUND: Given the lack of a complete and comprehensive library of microbial reference genomes, determining the functional profile of diverse microbial communities is challenging. The available functional analysis pipelines lack several key features: (i) an integrated alignment tool, (ii) operon-level analysis, and (iii) the ability to process large datasets. RESULTS: Here we introduce our open-sourced, stand-alone functional analysis pipeline for analyzing whole metagenomic and metatranscriptomic sequencing data, FMAP (Functional Mapping and Analysis Pipeline)...
October 10, 2016: BMC Bioinformatics
Saroj Jayasinghe
Clinicians often encounter patients having complex clinical scenarios (CCS) where diverse and dynamic diagnostic and therapeutic issues interact. A limited range of bedside methods are available to describe such patients and most often it is a diagnostic summary, a problem list, or a list of differential diagnoses. These methods fail to portray the interconnected nature of CCCs. They prevent visualization of a system of networks or a web of causation operative in CCSs.A more holistic conceptualization is required and the author argues for an approach based on systems science...
October 10, 2016: BMC Medical Education
Felix Lam, Christopher M Lalansingh, Holly E Babaran, Zhiyuan Wang, Stephenie D Prokopec, Natalie S Fox, Paul C Boutros
BACKGROUND: Visualization of data generated by high-throughput, high-dimensionality experiments is rapidly becoming a rate-limiting step in computational biology. There is an ongoing need to quickly develop high-quality visualizations that can be easily customized or incorporated into automated pipelines. This often requires an interface for manual plot modification, rapid cycles of tweaking visualization parameters, and the generation of graphics code. To facilitate this process for the generation of highly-customizable, high-resolution Venn and Euler diagrams, we introduce VennDiagramWeb: a web application for the widely used VennDiagram R package...
October 3, 2016: BMC Bioinformatics
Lucia K Gonzales, Dale Glaser, Lois Howland, Mary Jo Clark, Susie Hutchins, Karen Macauley, Jacqueline F Close, Noelle Lipkin Leveque, Kim Reina Failla, Raelene Brooks, Jillian Ward
BACKGROUND: A number of studies across different disciplines have investigated students' learning styles. Differences are known to exist between graduate and baccalaureate nursing students. However, few studies have investigated the learning styles of students in graduate entry nursing programs. . OBJECTIVES: Study objective was to describe graduate entry nursing students' learning styles. DESIGN/SETTING/PARTICIPANTS/METHODS: A descriptive design was used for this study...
September 28, 2016: Nurse Education Today
Bahige G Abdallah, Shatabdi Roy-Chowdhury, Raimund Fromme, Petra Fromme, Alexandra Ros
Protein crystallization is a major bottleneck of structure determination by X-ray crystallography, hampering the process by years in some cases. Numerous matrix screening trials using significant amounts of protein are often applied, while a systematic approach with phase diagram determination is prohibited for many proteins that can only be expressed in small amounts. Here, we demonstrate a microfluidic nanowell device implementing protein crystallization and phase diagram screening using nanoscale volumes of protein solution per trial...
2016: Crystal Growth & Design
Bonhee Chung
Poor subsistence farmers who live in a semi-arid area of northern Ethiopia build irrigation systems to overcome water shortages. However, there is a high risk of malaria transmission when increased standing water provides more favorable habitats for mosquito breeding. This is a serious problem because there are many barriers to malaria control measures and health care systems in the area. Using a causal loop diagram and computer simulations, the author attempted to visually illustrate positive and negative feedbacks between mosquito and human populations in the context of Simret, which is a small village located in northern Ethiopia and is generally considered a malaria-free area...
August 2016: Korean Journal of Parasitology
Nabila Rouahi, Zineb Ouazzani Touhami, Hasna Ahyayauch, Nisrin El Mlili, A Filali-Maltouf, Zakaria Belkhadir
BACKGROUND: Cancer is a worldwide health problem and pain is among the most common and unpleasant effects affecting well-being of cancer patients. Accurate description of pain can help physicians to improve its management. Many English tools have been developed to assess pain. Only a limited number of these are applied in Arab countries. Our aim was to assess the quality, the nature and the severity of pain using the short McGill Pain Questionnaire (SF-MPQ) on cancer patients in the National Institute of Oncology (NIO) in Rabat, Morocco...
2016: Asian Pacific Journal of Cancer Prevention: APJCP
T C Geppert, A M Meyer, G A Perry, P J Gunn
In the dairy industry, excess dietary CP is consistently correlated with decreased conception rates. However, the source from which excess CP is derived and how it affects reproductive function in beef cattle is largely undefined. The objective of this experiment was to determine the effects of feeding excess metabolizable protein (MP) from feedstuffs differing in rumen degradability on ovulatory follicular dynamics, subsequent corpus luteum (CL) development, steroid hormone production and circulating amino acids (AA) in beef cows...
September 9, 2016: Animal: An International Journal of Animal Bioscience
Denis Nam, Zachary Meyer, Richard D Rames, Ryan M Nunley, Robert L Barrack, Douglas J Roger
BACKGROUND: Recently, the direct superior approach (DSA) has been introduced in total hip arthroplasty (THA) with the goal of limiting soft tissue dissection. This study's purpose was to use a visual pain diagram questionnaire to determine the location and severity of pain in patients undergoing THA via a DSA vs miniposterior approach (MPA). METHODS: This was a prospective, Institutional Review Board (IRB)-approved investigation from 3 centers. Patients aged 18-70 years with a diagnosis of osteoarthritis were included...
August 10, 2016: Journal of Arthroplasty
Richard Charnigo, Maya Guglin
The "obesity paradox" in heart failure (HF) is a phenomenon of more favorable prognosis, especially better survival, in obese versus normal-weight HF patients. Various explanations for the paradox have been offered; while different in their details, they typically share the premise that obesity per se is not actually the cause of reduced mortality in HF. Even so, there is a lingering question of whether clinicians should refrain from, or at least soft-pedal on, encouraging weight loss among their obese HF patients...
August 27, 2016: Heart Failure Reviews
Oz Solomon, Vered Kunik, Amos Simon, Nitzan Kol, Ortal Barel, Atar Lev, Ninette Amariglio, Raz Somech, Gidi Rechavi, Eran Eyal
BACKGROUND: Evaluation of the possible implications of genomic variants is an increasingly important task in the current high throughput sequencing era. Structural information however is still not routinely exploited during this evaluation process. The main reasons can be attributed to the partial structural coverage of the human proteome and the lack of tools which conveniently convert genomic positions, which are the frequent output of genomic pipelines, to proteins and structure coordinates...
2016: BMC Genomics
Rozina H Bhimani, Joseph E Gaugler, Carol Skay
BACKGROUND: Symptoms of muscle tightness are common complaints that occur due to musculoskeletal and neuro-musculoskeletal injuries. Terms such as muscle tightness are often intermingled with other conditions including muscle tension, muscle spasticity and muscle rigidity. Discrepancies between patients and clinicians understanding of similar symptoms have been reported in the literature. AIMS: The current study sought to determine how patients' symptom experiences of muscle tightness correlate with examiner assessments...
August 17, 2016: Journal of Clinical Nursing
Mustafa Kotmakçı, Hasan Akbaba, Gülşah Erel, Gökhan Ertan, Gülten Kantarcı
The ease of application and no requirement of extra energy input make the microemulsion method favorable for solid lipid nanoparticles (SLNs) production. Very limited data are available to date on preparation of SLNs from pre-screened microemulsion phase diagrams. The purpose of this study was to investigate the microemulsion formation area with solid lipids using hot ternary phase diagrams at elevated temperatures and to use selected microemulsions for SLN production. Also, we aimed to characterize obtained SLNs in terms of physicochemical properties, in vitro cell toxicity, and hemolysis...
August 8, 2016: AAPS PharmSciTech
Aïmen Khacharem
Comprehension of a narrated diagram entail complex cognitive processing as learner is challenged to extract the orally evoked information. The present experiment examined the effects of 2 different forms of attention guidance - bottom-up and top-down - on comprehension performance, cognitive load investment, and motivation to learn, using a 2 × 2 mixed design with factors "Expertise" (Expert vs. Novice) and "Condition" (no-signal, circle, segment). The results revealed an expertise reversal effect indicating that the incorporation of visual signals in diagram is effective for novice learners but partially reverses and becomes ineffective for more experienced learners (even though they invested less mental effort and reported higher level of motivation in the segmented condition)...
August 8, 2016: Journal of Sports Sciences
Jian Guo, Shuxiang Guo, Yang Yu
In this paper, we proposed a novel master-slave robotic catheterization system with force feedback for VIS (Vascular Interventional Surgery). The force feedback to the operator on the master side is the key factor to improve the safety during VIS. The developed system used the MR (magneto rheological) fluid to realize force feedback, and it used the developed multidimensional monitoring interface to realize the visualization of force feedback, the developed multidimensional monitoring interface can monitor the motion information of the catheter and contact force between catheter tip or side wall and blood vessel wall, and the motion data of the catheter was collected and generated diagram for reference to surgeon...
October 2016: Biomedical Microdevices
Jeremy J Jay, Cory Brouwer
INTRODUCTION: Concise visualization is critical to present large amounts of information in a minimal space that can be interpreted quickly. Clinical applications in precision medicine present an important use case due to the time dependent nature of the interpretations, although visualization is increasingly necessary across the life sciences. In this paper we describe the Lollipops software for the presentation of panel or exome sequencing results. Source code and binaries are freely available at https://github...
2016: PloS One
Yi Wang, Ling Xu, Yong Q Gu, Devin Coleman-Derr
MOTIVATION: A key component of the analysis of microbiome datasets is the identification of OTUs shared between multiple experimental conditions, commonly referred to as the core microbiome. RESULTS: We present a web platform named MetaCoMET that enables the discovery and visualization of the core microbiome and provides a comparison of the relative abundance and diversity patterns between subsets of samples within a microbiome dataset. MetaCoMET provides an efficient and interactive graphical interface for analyzing each subset defined by the union or disjunction of groups within the Venn diagram, and includes a graphical taxonomy summary, alpha diversity metrics, Principal Coordinate analysis, abundance-based heatmaps, and a chart indicating the geographic distribution of each sample...
August 2, 2016: Bioinformatics
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