Visualization Facilities Research Articles

Visual analysis of multi-omics data.

We present a tool for multi-omics data analysis that enables simultaneous visualization of up to four types of omics data on organism-scale metabolic network diagrams. The tool's interactive web-based metabolic charts depict the metabolic reactions, pathways, and metabolites of a single organism as described in a metabolic pathway database for that organism; the charts are constructed using automated graphical layout algorithms. The multi-omics visualization facility paints each individual omics dataset onto a different "visual channel" of the metabolic-network diagram. For example, a transcriptomics dataset might be displayed by coloring the reaction arrows within the metabolic chart, while a companion proteomics dataset is displayed as reaction arrow thicknesses, and a complementary metabolomics dataset is displayed as metabolite node colors. Once the network diagrams are painted with omics data, semantic zooming provides more details within the diagram as the user zooms in. Datasets containing multiple time points can be displayed in an animated fashion. The tool will also graph data values for individual reactions or metabolites designated by the user. The user can interactively adjust the mapping from data value ranges to the displayed colors and thicknesses to provide more informative diagrams.

Actualisation of Inclusive Values Through Religious Education in High Schools

This study aims to analyse the actualisation of inclusive values in religious learning and examine how the values of tasamuh, ta'awun, and justice are applied at SMA Karuna Dipa Palu, which has a diversity of ethnicities, cultures, and religions. The main objective is to assess how these values strengthen inclusive religious education and identify opportunities and challenges in their implementation. This study uses a qualitative field study method with a case study approach, collecting data through interviews, observations, and documentation analysis to understand the application of inclusivism values in religious education at Karuna Dipa High School, with data analysis carried out using the Miles and Huberman techniques which include data condensation, data presentation, and concluding. The formal-textual approach in religious learning actualises the values of inclusivity through the opening, core, and closing stages. In the opening stage, teachers from various religions prepare the class and motivate students. In the core stage, the values of openness, tolerance, mutual assistance, and justice are taught through each religion's teachings. In the closing stage, teachers and students summarise necessary materials and give assignments, thus creating solid social solidarity in the school. Karuna Dipa High School faces challenges in developing inclusivism values, such as limited technological resources, visualisation facilities for materials, and limited learning time. In addition, the lack of sustainable religious programs also hinders students' comprehensive understanding of inclusivism. This research implies that inclusivism values in religious education can strengthen social solidarity and inclusivity in diverse schools but requires increased resources, facilities, and sustainable programs for optimal results.

FerroLigandDB: A Ferroptosis Ligand Database of Structure-Activity Relations.

Ferroptosis is an iron-dependent programmed cell death characterized by lipid peroxidation that is linked to the pathophysiological processes in many diseases, such as neurodegenerative diseases, cancers, ischemia-reperfusion injuries, and organ damages. Many proteins are associated with ferroptosis signal transduction pathways. Novel chemical compounds are demanded to explore and regulate these pathways. Therefore, a ferroptosis ligand database, which holds relations among chemical structures, targets, bioactivities, and diseases, is needed for discovering and designing new ferroptosis regulators. This work reports FerroLigandDB, a manually curated database for small-molecular ferroptosis regulators. The database comprises 466 ferroptosis inducer entries (with 380 unique molecular structures) and 539 ferroptosis inhibitor entries (with 468 unique molecular structures) (note: one compound can be recorded as multiple entries due to the different assays). Each ferroptosis ligand entry is detailed with compound IDs, structure attributes, bioactivity values, test objects, target information, associated diseases, and references. The fields in the FerroLigandDB database implicitly contain relationships among chemical structures, bioactivities, targets, and diseases. Thus, FerroLigandDB is a comprehensive resource for scientists to design and discover novel ferroptosis regulators. The user interface of FerroLigandDB is implemented with query features and data visualization facilities. With compound identifiers, the compounds are linked to the records of other chemoinformatics databases (such as PubChem and SciFinder). The FerroLigandDB database is freely accessible at http://ferr.gulab.org.cn/.

Comprehensive Evaluation of Visual Guiding Systems for Enhancing Traffic Safety in Freeway Tunnels: An Improved Matter-Element Method with Case Study

Provision of visual guiding facilities to improve traffic safety is in disarray. This paper proposes a comprehensive system for evaluating the effectiveness of visual guiding facilities in freeway tunnels. Aimed at addressing the current problems, this paper presents an evaluation system based on three key factors: spatial right-of-way, driving human factors, and driving performance. To evaluate the proposed system, data were collected in tunnels under varying conditions during daytime and nighttime, before and after improvement. The evaluation system categorized spatial right-of-way into lateral, longitudinal, and vertical aspects, which mainly depend on the installation of visual guiding facilities. Driving human factors were evaluated based on visual performance, and the installation method of visual facilities focused on sight distance, sight zone, and visual load. Driving performance was also evaluated by considering vehicle operational characteristics, including the maintaining of speed, distance, and lane. The results demonstrated a considerable improvement in the evaluation level of the visual guiding system, achieving Level B compared with traditional improvement schemes during both daytime and nighttime scenarios. This evaluation system could be a valuable guide for managing and designing traffic engineering in tunnels.

Department Of Electrical And Electronics Engineering

The department has good infrastructural facilities and is equipped with full fledged laboratories such as Basic Electrical lab Electrical Machines Lab- I and II Power Electronics lab Electrical Measurements lab Advanced Electrical Engineering lab and Electrical Workshop The department also has audio visual facilities with LCD and OHP for effective teaching

A Computational Interface Design to Reenact the Transitory Moments of the Izmir International Fair

Grouper is a computational interface design, i.e. a web-based platform supporting researchers working with (visual) digital collections. The significance of this platform is about the positioning of researchers and offering them the possibility to create, manage and visualise a collection within their research process. Digital collections are central to the work with an early visualisation facility that allows for iterations in a way where visualisation becomes researching rather than a showcase at the end of research. Focusing on the Izmir International (Trade) Fair and ephemera collections that define an important period in Izmir's history, this study and Grouper ask: ‘How can digital tools help to trace, piece together and make sense of the design heritage of the Izmir International Fair, which includes a wide range of design practices and objects spread across nine decades?’ Working with the ephemera of the Izmir International Fair propels new conceptual and practical additions to Grouper, emphasizing the concepts of ‘assemblage (collection of collections)’ and ‘collaboration’. Thanks to the Grouper computational interface, the object-Fair can be observed through a new lens offered by the multiplicity of visual ephemera included in the assemblage and collaboration as a result of collection(s) from multiple sources and people. This lens of Grouper allows the creation of a content and narrative that was not previously available and enables to reenact the transitory moments of Izmir International Fair. Throughout this work, notions of transience and permanence accompany us in piecing ephemera together, in digitising collections, in Grouper's loose, flexible, modular structured research process, and in the persistence of transient objects and memories in new narratives.

KALMUL Software Assited by GeoGebra (A New Media for Learning Multivariable Calculus)

Multivariable calculus is one of the compulsory subjects for study programmes in the fields of science and technology. The graphical approach to of two variable calculus written in a book or board usually makes it difficult for students to understand. This research aims to build a tool for learning multivariable calculus using GeoGebra. GeoGebra provides three-dimensional visualization facilities through the GeoGebra 3D Graphing Calculator software. This software has an android application so that it can be accessed via a smart phone. This research developed learning media for multivariable calculus using GeoGebra software in the form of an android application. The lecture material is limited to multivariable derivative. The research method used in this study is research and development (R & D) with development of 4-D models (Four D) for research design. The design of this study includes four main stages, namely the definition phase, the design stage, the development stage, and the dissemination stage. The results of validating media products are in good criteria and the results of small and large scale tests are very good criteria.

Incidence of stereo blindness in a recent VR distance perception user study

Estimates of stereo-blindness, the inability to see in 3D using stereopsis, often sit in the 5-10% range. At the Curtin University HIVE visualization facility, we regularly show stereoscopic content. During those demonstrations we invariably show a test random dot stereogram and it’s been our casual observation that the incidence of stereo-blindness amongst visits has been much lower than the 5-10% figure, perhaps as low as 2%. Our thought was that perhaps eye care has improved since the time that the original stereo-blindness studies were performed. A VR based user study was recently run in the HIVE, as part of a PhD project, with an aim to study distance perception in underwater virtual heritage experiences. Distance perception is facilitated by a range of visual cues, including stereoscopic vision, and as a result we screened participants for stereo-blindness. Using a standardized stereo test, we found approximately 5% of participants reported as stereo blind. This presentation will provide some background on stereo-blindness, and discuss issues related to measuring stereo-blindness and its likely prevalence in the general population. It will also provide an early look at the VR based user study investigating distance perception in underwater virtual heritage experiences.

A Fuzzy Logic-Based Cost Modelling System for Recycling Carbon Fibre Reinforced Composites

Carbon Fibre Reinforced Polymers (CFRPs) are commonly used materials in manufacturing components and products in the automotive, aerospace, and wind energy industries generating thousands of tons of waste, thus creating a threat to the environment if not recycled. Therefore, it is important for both academia and industry to investigate various ways of recycling this material. However, there is an urgent need for a reliable cost predication system to assist in making informed decisions, planning sustainable treatment, and developing pricing strategies for different waste treatment scenarios. This research paper presents the development of a fuzzy logic-based system to perform cost estimation of recycling processes of the CFRP. The developed system has taken into consideration uncertainties such as the characteristics of End of Life (EoL) material including its size and weight, its origin and diversity of existing recycling methods, and quantity of recycling waste. Cost drivers were divided into categories such as dismantling, transportation, operation, and capital cost. The system was developed by creating 243 fuzzy rules and three levels of fuzzy sets. Moreover, an interactive user-friendly interface was developed to enable the user to use the system easily and efficiently. Finally, case study results were examined to compare the whole life recycling cost of four different recycling technologies in various scenarios of waste treatment. The developed fuzzy logic-based system has the capability in evaluating the cost structure of CFRP recycling techniques and take into consideration uncertainty factors. Hence, a major contribution of the developed system is its provision of the heuristic rules that aid the decision-making process for selecting a cost-effective recycling method. The visualisation facility of the developed system is also a useful tool in enabling potential users to forecast the cost of the CFRP recycling techniques upfront.

A parametric flow visualisation study on the impregnation and consolidation stages of the Wet Compression Moulding process. Part I: Process parameters

The Wet Compression Moulding (WCM) process is a recently re-introduced production technique increasingly adopted in industry, most commonly in the automotive sector, for high volume production of structural reinforced plastics components. To date, process design parameters have been established through experiences gained by technologists. To develop an understanding of the influence of process and material parameters, two flow visualisation facilities have been developed to investigate the resin application, consolidation, and post-filling stages of WCM. This article presents a study on process parameters, including hold time, resin mass, edge clamping, and press profile. All studied parameters have been shown to influence the magnitude of resin pressure reached at the completion of the consolidation, as well as the required tool clamping forces. The mode of press control is also shown to affect the rate of pressure decay during post-filling, providing a mechanism for reducing void diameter at the onset of resin gelation.

GrimoireLab: A toolset for software development analytics.

BackgroundAfter many years of research on software repositories, the knowledge for building mature, reusable tools that perform data retrieval, storage and basic analytics is readily available. However, there is still room to improvement in the area of reusable tools implementing this knowledge.GoalTo produce a reusable toolset supporting the most common tasks when retrieving, curating and visualizing data from software repositories, allowing for the easy reproduction of data sets ready for more complex analytics, and sparing the researcher or the analyst of most of the tasks that can be automated.MethodUse our experience in building tools in this domain to identify a collection of scenarios where a reusable toolset would be convenient, and the main components of such a toolset. Then build those components, and refine them incrementally using the feedback from their use in both commercial, community-based, and academic environments.ResultsGrimoireLab, an efficient toolset composed of five main components, supporting about 30 different kinds of data sources related to software development. It has been tested in many environments, for performing different kinds of studies, and providing different kinds of services. It features a common API for accessing the retrieved data, facilities for relating items from different data sources, semi-structured storage for easing later analysis and reproduction, and basic facilities for visualization, preliminary analysis and drill-down in the data. It is also modular, making it easy to support new kinds of data sources and analysis.ConclusionsWe present a mature toolset, widely tested in the field, that can help to improve the situation in the area of reusable tools for mining software repositories. We show some scenarios where it has already been used. We expect it will help to reduce the effort for doing studies or providing services in this area, leading to advances in reproducibility and comparison of results.

Assessment of Three Clinical Tests for Evaluation of Concussion/Mild Traumatic Brain Injury

A focus of both basic and clinical research on concussion/mild traumatic brain injury has been to ascertain which test, or combination of tests, is best for its detection. In the present retrospective analysis, three potential clinical tests were evaluated to determine which one, or combination, best differentiated between visually-symptomatic concussed (n=52) versus asymptomatic non-concussed (n=24) patients. The three tests were: distance horizontal vergence facility, peripheral visual motion, and critical flicker fusion. Each test was found to differentiate the two groups. The peripheral visual motion test was the best, with a sensitivity of 93.8% and a specificity of 83.3%. When this test was combined with the distance horizontal vergence facility test, specificity remained the same whereas sensitivity increased to 94.4%. Addition of the critical flicker fusion test did not affect these values. Thus, of the three, the combination of the peripheral visual motion and distance horizontal vergence facility tests has a high probability of assisting in concussion detection and diagnosis.

Improving Self Independence and Adjustment-based Students' Language Competence through Self Access Center

Self-Access Centre (SAC) originating from self-access language learning is expected to be an explorative learning that can make students content with learning language about new literacies and it is also easy for them to understand. In terms of independence concept, SAC is equipped by the facilities that support learning process consisting of applications and equipment. In related to the samples, the fourth-grade students are more interested to explore the learning process by using visual media and facilities that are packaged to attract their attention. The application of SAC facilities becomes a source of current information and an embodiment of technological integration with literacy that is easy for students to understand. The observation of such application is conducted every day in six months and the interview session is done in certain times when the students are free. This study uses qualitative methods aimed at knowing and understanding occurring phenomena, the learning process, or the views and input of the research subjects involved. The data collection is considered to be finished. On the research evidence evaluation stage, the NUD*IST software is implemented to search for emerging and developing themes and the evidences are collected based on these themes. Three categories, namely the construction of knowledge, language learning and the theories of listening and reading become more evident. In terms of knowledge construction, the sub-category of clarification, association and development is determined. The category of reading contains process and product. Its sub-category is problem solving. The third category, the independent learning through SAC contains the sub-category of simplifying the learning style and independence. Based on the categories above, the theory of knowledge construction, learning & problem solving, and learning through SAC is related to the students' experiences. The fourth category, integration of subjects, is intended to be an evidence containing reading skill. The fifth category, students' independence, is also influenced intentionally by the SAC program.

Three-Dimensional Structures of Carbohydrates and Where to Find Them.

Analysis and systematization of accumulated data on carbohydrate structural diversity is a subject of great interest for structural glycobiology. Despite being a challenging task, development of computational methods for efficient treatment and management of spatial (3D) structural features of carbohydrates breaks new ground in modern glycoscience. This review is dedicated to approaches of chemo- and glyco-informatics towards 3D structural data generation, deposition and processing in regard to carbohydrates and their derivatives. Databases, molecular modeling and experimental data validation services, and structure visualization facilities developed for last five years are reviewed.

Advancing Decision-Visualization Environments—Empirically informed Design Recommendations

Semi-immersive visualization facilities support research, planning, and decision-making at the science-society-policy interface. Decision theaters, visualization studios, and similar installations—here referred to as Decision-Visualization Environments (DVEs)—facilitate human-computer-content interactions to explore climate change impacts, resource management practices, and urban design solutions. This comparative study analyzes the current practices of seven DVE facilities from around the world based on expert interviews, site visits, and document review. We found common practices across 53 attributes concerning the planning, stakeholder involvement, and realization of DVE activities. DVEs need good facilitation and purposeful combination to unlock their full potential. An active network of DVEs could constitute a productive learning community to pool and coordinate activities and share insights. Based on our findings, we deduce recommendations on how to improve the design of existing DVEs, to create new DVEs, as well as to plan DVE projects and events.

GSAn: an alternative to enrichment analysis for annotating gene sets.

The revolution in new sequencing technologies is greatly leading to new understandings of the relations between genotype and phenotype. To interpret and analyze data that are grouped according to a phenotype of interest, methods based on statistical enrichment became a standard in biology. However, these methods synthesize the biological information by a priori selecting the over-represented terms and may suffer from focusing on the most studied genes that represent a limited coverage of annotated genes within a gene set. Semantic similarity measures have shown great results within the pairwise gene comparison by making advantage of the underlying structure of the Gene Ontology. We developed GSAn, a novel gene set annotation method that uses semantic similarity measures to synthesize a priori Gene Ontology annotation terms. The originality of our approach is to identify the best compromise between the number of retained annotation terms that has to be drastically reduced and the number of related genes that has to be as large as possible. Moreover, GSAn offers interactive visualization facilities dedicated to the multi-scale analysis of gene set annotations. Compared to enrichment analysis tools, GSAn has shown excellent results in terms of maximizing the gene coverage while minimizing the number of terms.

Superposition of micropattern and microlens arrays for improved dynamic moiré pattern

Layers of microlens array (MLA) and micropattern array (MPA) are integrated on a layer of polyester film, with the aim to give rise to a special dynamic pattern which can be observed without any visual facilities. In this paper, we propose an improved approach for obtaining a presentation of an individual dynamic moiré pattern rather than dynamic moiré patterns in an array. The improved dynamic moiré pattern can be amplified without size limitation and has different dynamic effects from the traditional dynamic moiré pattern, as it will appear and disappear with variation of the viewing angle. The principle of designing every elemental unit of the MPA is described. The differences between the improved method and the traditional method are compared, and how the improved dynamic moiré pattern works is explained in detail. The formulae describing the relationship between parameters of the improved dynamic moiré pattern and its microstructure are derived. In addition, relative experiments are conducted, and an improved dynamic moiré pattern of the expected size are achieved and validated. This microstructural device on film has potential applications in document security, packaging, and authentication.

Construction and validation of public healthcare service quality model - an empirical study of Indian public healthcare facilities in digital era

Measuring service quality is an effort that had been kept by several researchers in past for various services. The present research measures and addresses the service quality gap that exists among the services provided by hospital industry. The major focus of any hospital is the patients and well-being of patients is the fundamental objective of any hospital. In this digital era, consumers are educated and smart and command satisfaction in all services. The present study is not limited to measure the service gap and identify the modified factors affecting the service quality but also confirm the same through confirmatory factor analysis for Indian public hospitals. Also, the study is extended to have separate confirmatory models for rural and urban public hospitals located in Surat, Gujarat, India. The study concludes and confirms medical services, service responsiveness, discharge, admission, hygiene, and visual facility as modified factors for measuring service quality.

Implementation of Computer Bases Assessment on Students’ Aptitude Using Online and Multimedia Test for Talent Mapping

Each individual has different aptitudes and personalities. As a very important role, schools can map students’ interests according to students’ talents and interests. This is very important because proper placement of interest can support students’ academic ability. This study aims to create a standard measurement that can be used for mapping and tracking students’ talent in high school becomes easier and measurable. There are 5 aspects related to aptitudes in this research such as visual reasoning test, numerical reasoning test, verbal analysis test, spatial recognition test and vocabulary test. The Rasch model was used to analyze the difficulty level of the item, and from the results of the study showed that the difficulty level of the item was in the normal distribution at the interval - 4.5735 to 6.4989. By using the Google Form tool, students’ aptitudes tests are developed and presented in varied form and can provide test result information automatically. The use of Google Form has several advantages, such as (1) the test does not have to be done simultaneously at the same time and place, (2) the item can be made more interesting because it can use images and audio visual facilities and (3) there is no need to duplicate the test paper since it is computer-based tests to minimize test administration.

The Development of Students’ Aptitude Test in Online and Multimedia Based Interests Group Selection

Each individual has different aptitudes and personalities. Schools have a very important rules to map students’ interests according to students’ talents and interests. This is very important because proper placement of interest can support students’ academic ability. This study aims to create a standard measurement that can be used for mapping and tracking students’ talent in high school becomes easier and measurable. There are 5 aspects related to aptitudes in this research such as visual reasoning test, numerical reasoning test, verbal analysis test, spatial recognition test and vocabulary test. The Rasch model was used to analyze the difficulty level of the item, and from the results of the study showed that the difficulty level of the item was in the normal distribution at the interval -3.57 to 4.5. By using the Google Form tool, students’ aptitudes tests are developed and presented in varied form and can provide test result information automatically. The use of Google Form has several advantages, such as (1) the test does not have to be done simultaneously at the same time and place, (2) the item can be made more interesting because it can use images and audio visual facilities and (3) there is no need to duplicate the test paper since it is computer-based tests to minimize test administration.