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Visualization and Diagrams

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https://www.readbyqxmd.com/read/28196576/care-coordination-from-a-strengths-perspective-a-practice-based-evidence-evaluation-of-evidence-based-practice
#1
Karen A Monsen, Catherine E Vanderboom, Kirstie S Olson, Mary E Larson, Diane E Holland
BACKGROUND AND PURPOSE: It is critical to accurately represent strengths interventions to improve data and enable intervention effectiveness research from a strengths perspective. However, it is challenging to understand strengths interventions from the multiple perspectives of computerized knowledge representation, evidence-based practice guidelines, and practice-based evidence narratives. Intervention phrases abstracted from nurse care coordinator practice narratives described strengths interventions with community-dwelling elders...
February 1, 2017: Research and Theory for Nursing Practice
https://www.readbyqxmd.com/read/28186915/a-novel-variable-precision-reduction-approach-to-comprehensive-knowledge-systems
#2
Chao Yang, Hongbo Liu, Sean McLoone, C L Philip Chen, Xindong Wu
A comprehensive knowledge system reveals the intangible insights hidden in an information system by integrating information from multiple data sources in a synthetical manner. In this paper, we present a variable precision reduction theory, underpinned by two new concepts: 1) distribution tables and 2) genealogical binary trees. Sufficient and necessary conditions to extract comprehensive knowledge from a given information system are also presented and proven. A complete variable precision reduction algorithm is proposed, in which we introduce four important strategies, namely, distribution table abstracting, attribute rank dynamic updating, hierarchical binary classifying, and genealogical tree pruning...
February 8, 2017: IEEE Transactions on Cybernetics
https://www.readbyqxmd.com/read/28173698/a-visual-language-for-protein-design
#3
Robert Sidney Cox Iii, James Alastair McLaughlin, Raik Gruenberg, Jake Beal, Anil Wipat, Herbert Sauro
As protein engineering becomes more sophisticated, practitioners increasingly need to share diagrams for communicating protein designs. To this end, we present a draft visual language, Protein Language, that describes the high-level architecture of an engineered protein with a few easy-to-draw glyphs, intended to be compatible with other biological diagram languages such as SBOL and SBGN. Protein Language con- sists of glyphs for representing important features (e.g., globular domains, recognition and localization sequences, sites of covalent modification, cleavage and catalysis), rules for composing these glyphs to represent complex architectures, and rules constraining the scaling and styling of diagrams...
February 7, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28161336/dynamic-visualisation-of-municipal-waste-management-performance-in-the-eu-using-ternary-diagram-method
#4
R Pomberger, R Sarc, K E Lorber
This contribution describes the dynamic visualisation of European (EU 28) municipal waste management performance, using the Ternary Diagram Method. Municipal waste management performance depends primarily on three treatment categories: recycling & composting, incineration and landfilling. The framework of current municipal waste management including recycling targets, etc. is given by the Waste Framework Directive - 2008/98/EC. The proposed Circular Economy Package should stimulate Europe's transition towards more sustainable resources and energy oriented waste management...
February 1, 2017: Waste Management
https://www.readbyqxmd.com/read/28152841/evaluating-data-driven-breast-surgery-treatment-path-visualizations-from-registry-and-administrative-data
#5
Alexander S Taylor, Mia Alyce Levy
: 195 Background: Breast cancer patients face difficult decisions about their surgical care without a full understanding of their options. The learning health system goal is to use information from the care of prior patients to inform the care of future patients. We aim to apply this concept to generate data-driven surgical paths, develop interactive path visualizations to inform patients, and evaluate their impact. METHODS: We used cancer registry and administrative CPT codes for women diagnosed with stage 0-III breast cancer between FY2010-14 at a comprehensive cancer center...
March 2016: Journal of Clinical Oncology: Official Journal of the American Society of Clinical Oncology
https://www.readbyqxmd.com/read/28130697/blobel-and-sabatini-s-beautiful-idea-visual-representations-of-the-conception-and-refinement-of-the-signal-hypothesis
#6
Michelle Lynne LaBonte
In 1971, G√ľnter Blobel and David Sabatini proposed a novel and quite speculative schematic model to describe how proteins might reach the proper cellular location. According to their proposal, proteins destined to be secreted from the cell contain a "signal" to direct their release. Despite the fact that Blobel and Sabatini presented their signal hypothesis as a "beautiful idea" not grounded in experimental evidence, they received criticism from other scientists who opposed such speculation. Following the publication of the 1971 model, Blobel persisted in conducting experiments and revising the model to incorporate new data...
January 27, 2017: Journal of the History of Biology
https://www.readbyqxmd.com/read/28113724/brain-modulyzer-interactive-visual-analysis-of-functional-brain-connectivity
#7
Sugeerth Murugesan, Kristofer Bouchard, Jesse A Brown, Bernd Hamann, William W Seeley, Andrew Trujillo, Gunther H Weber
We present Brain Modulyzer, an interactive visual exploration tool for functional magnetic resonance imaging (fMRI) brain scans, aimed at analyzing the correlation between different brain regions when resting or when performing mental tasks. Brain Modulyzer combines multiple coordinated views-such as heat maps, node link diagrams and anatomical views-using brushing and linking to provide an anatomical context for brain connectivity data. Integrating methods from graph theory and analysis, e.g., community detection and derived graph measures, makes it possible to explore the modular and hierarchical organization of functional brain networks...
May 9, 2016: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28100267/a-bibliometric-analysis-of-two-decades-of-aromatherapy-research
#8
Malcolm Koo
BACKGROUND: Quantitative data are lacking on the profile of published research in aromatherapy. The objective of the study was to investigate the profile of original and review articles under the topic aromatherapy using bibliometric analysis. METHODS: Articles on aromatherapy, published between 1995 and 2014, were retrieved from the Science Citation Index-Expanded database from the Web of Science. The records extracted were analyzed for citation characteristics, including the distribution of publication years, languages, countries or regions, journals, articles, and authors using HistCite 12...
January 18, 2017: BMC Research Notes
https://www.readbyqxmd.com/read/28088457/preformulation-characterization-stabilization-and-formulation-design-for-the-acrylodan-labeled-glucose-binding-protein-sm4-ac
#9
Neha Sahni, Rajoshi Chaudhuri, John M Hickey, Prakash Manikwar, Ajit D'Souza, Andrew Metters, Sangeeta B Joshi, C Russell Middaugh, David B Volkin
This study describes the physicochemical characterization, stabilization, and formulation design of SM4-AC, an acrylodan-labeled glucose/galactose-binding protein for use in a continuous glucose monitoring device. The physical stability profile of SM4-AC as a function of pH and temperature was monitored using a combination of biophysical techniques and the resulting physical stability profile was visualized using an empirical phase diagram. Forced degradation chemical stability studies (Asn deamidation, Met oxidation) of SM4-AC were performed using a combination of capillary isoelectric focusing, peptide mapping, and reversed-phase HPLC...
January 11, 2017: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/28078194/trauma-exposed-latina-immigrants-networks-a-social-network-analysis-approach
#10
Alejandra Hurtado-de-Mendoza, Adriana Serrano, Felisa A Gonzales, Nicole C Fernandez, Mark Cabling, Stacey Kaltman
OBJECTIVE: Trauma exposure among Latina immigrants is common. Social support networks can buffer the impact of trauma on mental health. This study characterizes the social networks of trauma-exposed Latina immigrants using a social network analysis perspective. METHODS: In 2011-2012 a convenience sample (n=28) of Latina immigrants with trauma exposure and presumptive depression or posttraumatic stress disorder was recruited from a community clinic in Washington DC...
November 2016: Journal of Latina/o Psychology
https://www.readbyqxmd.com/read/28077720/local-circuits-of-v1-layer-4b-neurons-projecting-to-v2-thick-stripes-define-distinct-cell-classes-and-avoid-cytochrome-oxidase-blobs
#11
Jeff Yarch, Frederick Federer, Alessandra Angelucci
: Decades of anatomical studies on the primate primary visual cortex (V1) have led to a detailed diagram of V1 intrinsic circuitry, but this diagram lacks information about the output targets of V1 cells. Understanding how V1 local processing relates to downstream processing requires identification of neuronal populations defined by their output targets. In primates, V1 layers (L)2/3 and 4B send segregated projections to distinct cytochrome oxidase (CO) stripes in area V2: neurons in CO blob columns project to thin stripes while neurons outside blob columns project to thick and pale stripes, suggesting functional specialization of V1-to-V2 CO streams...
January 11, 2017: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
https://www.readbyqxmd.com/read/28035814/sbml-diff-a-tool-for-visually-comparing-sbml-models-in-synthetic-biology
#12
James Scott-Brown, Antonis Papachristodoulou
We present sbml-diff, a tool that is able to read a model of a biochemical reaction network in SBML format and produce a range of diagrams showing different levels of detail. Each diagram type can be used to visualize a single model or to visually compare two or more models. The default view depicts species as ellipses, reactions as rectangles, rules as parallelograms, and events as diamonds. A cartoon view replaces the symbols used for reactions on the basis of the associated Systems Biology Ontology terms...
January 25, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28011779/cerebroviz-an-r-package-for-anatomical-visu-alization-of-spatiotemporal-brain-data
#13
Ethan Bahl, Tanner Koomar, Jacob J Michaelson
: Spatiotemporal transcriptomic profiling has provided valuable insight into the patterning of gene expression throughout the human brain from early fetal development to adulthood. When combined with prior knowledge of a disease's age at onset and region-specificity, these expression profiles have provided the necessary context to both strengthen putative gene-disease associations and infer new associations. While a wealth of spatiotemporal expression data exists, there are currently no tools available to visualize this data within the anatomical context of the brain, thus limiting the intuitive interpretation of many such findings...
December 22, 2016: Bioinformatics
https://www.readbyqxmd.com/read/27998687/effects-of-applied-stress-ratio-on-the-fatigue-behavior-of-additively-manufactured-porous-biomaterials-under-compressive-loading
#14
Joep de Krijger, Calvin Rans, Brecht Van Hooreweder, Karel Lietaert, Behdad Pouran, Amir A Zadpoor
Additively manufactured (AM) porous metallic biomaterials are considered promising candidates for bone substitution. In particular, AM porous titanium can be designed to exhibit mechanical properties similar to bone. There is some experimental data available in the literature regarding the fatigue behavior of AM porous titanium, but the effect of stress ratio on the fatigue behavior of those materials has not been studied before. In this paper, we study the effect of applied stress ratio on the compression-compression fatigue behavior of selective laser melted porous titanium (Ti-6Al-4V) based on the diamond unit cell...
December 7, 2016: Journal of the Mechanical Behavior of Biomedical Materials
https://www.readbyqxmd.com/read/27964719/pathway-collages-personalized-multi-pathway-diagrams
#15
Suzanne Paley, Paul E O'Maille, Daniel Weaver, Peter D Karp
BACKGROUND: Metabolic pathway diagrams are a classical way of visualizing a linked cascade of biochemical reactions. However, to understand some biochemical situations, viewing a single pathway is insufficient, whereas viewing the entire metabolic network results in information overload. How do we enable scientists to rapidly construct personalized multi-pathway diagrams that depict a desired collection of interacting pathways that emphasize particular pathway interactions? RESULTS: We define software for constructing personalized multi-pathway diagrams called pathway-collages using a combination of manual and automatic layouts...
December 13, 2016: BMC Bioinformatics
https://www.readbyqxmd.com/read/27956095/real-time-visualization-of-the-precipitation-and-phase-behavior-of-octaethylporphyrin-in-lipid-microparticles
#16
Elisa Parra, Pablo Hervella, David Needham
The material properties of micro- and nanoparticles are fundamental for their bulk properties in suspension, like their stability and encapsulation efficiency. A particularly interesting system with potential biomedical applications is the encapsulation of hydrophobic porphyrins into lipid particles and their use as metal atom chelators, where retention and stability are keys for the design process. The overall goal here was to study the solubility, phase behavior and mixing of octaethylporphyrin (OEP) and OEP-Cu chelates with two core materials, triolein (TO) and cholesteryl acetate (CA), as single microparticles...
December 9, 2016: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/27942090/pathfinder-visual-analysis-of-paths-in-graphs
#17
C Partl, S Gratzl, M Streit, A M Wassermann, H Pfister, D Schmalstieg, A Lex
The analysis of paths in graphs is highly relevant in many domains. Typically, path-related tasks are performed in node-link layouts. Unfortunately, graph layouts often do not scale to the size of many real world networks. Also, many networks are multivariate, i.e., contain rich attribute sets associated with the nodes and edges. These attributes are often critical in judging paths, but directly visualizing attributes in a graph layout exacerbates the scalability problem. In this paper, we present visual analysis solutions dedicated to path-related tasks in large and highly multivariate graphs...
June 2016: Computer Graphics Forum: Journal of the European Association for Computer Graphics
https://www.readbyqxmd.com/read/27923350/coneva-a-toolbox-for-comprehensive-assessment-of-protein-contacts
#18
Badri Adhikari, Jackson Nowotny, Debswapna Bhattacharya, Jie Hou, Jianlin Cheng
BACKGROUND: In recent years, successful contact prediction methods and contact-guided ab initio protein structure prediction methods have highlighted the importance of incorporating contact information into protein structure prediction methods. It is also observed that for almost all globular proteins, the quality of contact prediction dictates the accuracy of structure prediction. Hence, like many existing evaluation measures for evaluating 3D protein models, various measures are currently used to evaluate predicted contacts, with the most popular ones being precision, coverage and distance distribution score (Xd)...
December 7, 2016: BMC Bioinformatics
https://www.readbyqxmd.com/read/27918598/sighted-and-visually-impaired-students-perspectives-of-illustrations-diagrams-and-drawings-in-school-science
#19
Celia McDonald, Susan Rodrigues
Background In this paper we report on the views of students with and without visual impairments on the use of illustrations, diagrams and drawings (IDD) in science lessons. Method Our findings are based on data gathered through a brief questionnaire completed by a convenience sample of students prior to trialling new resource material. The questionnaire sought to understand the students' views about using IDD in science lessons. The classes involved in the study included one class from a primary school, five classes from a secondary school and one class from a school for visually impaired students...
2016: Wellcome Open Res
https://www.readbyqxmd.com/read/27913586/local-circuits-of-v1-layer-4b-neurons-projecting-to-v2-thick-stripes-define-distinct-cell-classes-and-avoid-cytochrome-oxidase-blobs
#20
Jeff Yarch, Frederick Federer, Alessandra Angelucci
: Decades of anatomical studies on the primate primary visual cortex (V1) have led to a detailed diagram of V1 intrinsic circuitry, but this diagram lacks information about the output targets of V1 cells. Understanding how V1 local processing relates to downstream processing requires identification of neuronal populations defined by their output targets. In primates, V1 layers (L)2/3 and 4B send segregated projections to distinct cytochrome oxidase (CO) stripes in area V2: neurons in CO blob-columns project to thin stripes, and those outside blob columns to thick and pale stripes, suggesting functional specialization of V1-to-V2 CO streams...
December 2, 2016: Journal of Neuroscience: the Official Journal of the Society for Neuroscience
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