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Moreira G, Hosseini M, Veiga C, Alexandre L, Colaninno N, de Oliveira D, Ferreira N, Lage M, Miranda F. Curio: A Dataflow-Based Framework for Collaborative Urban Visual Analytics. IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 2025; 31:1224-1234. [PMID: 39255103 DOI: 10.1109/tvcg.2024.3456353] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/12/2024]
Abstract
Over the past decade, several urban visual analytics systems and tools have been proposed to tackle a host of challenges faced by cities, in areas as diverse as transportation, weather, and real estate. Many of these tools have been designed through collaborations with urban experts, aiming to distill intricate urban analysis workflows into interactive visualizations and interfaces. However, the design, implementation, and practical use of these tools still rely on siloed approaches, resulting in bespoke systems that are difficult to reproduce and extend. At the design level, these tools undervalue rich data workflows from urban experts, typically treating them only as data providers and evaluators. At the implementation level, they lack interoperability with other technical frameworks. At the practical use level, they tend to be narrowly focused on specific fields, inadvertently creating barriers to cross-domain collaboration. To address these gaps, we present Curio, a framework for collaborative urban visual analytics. Curio uses a dataflow model with multiple abstraction levels (code, grammar, GUI elements) to facilitate collaboration across the design and implementation of visual analytics components. The framework allows experts to intertwine data preprocessing, management, and visualization stages while tracking the provenance of code and visualizations. In collaboration with urban experts, we evaluate Curio through a diverse set of usage scenarios targeting urban accessibility, urban microclimate, and sunlight access. These scenarios use different types of data and domain methodologies to illustrate Curio's flexibility in tackling pressing societal challenges. Curio is available at urbantk.org/curio.
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Barker-Collo S, Krishnamurthi R, Nair B, Ranta A, Douwes J, Feigin V. Depression and anxiety at 1- and 12-months post ischemic stroke: methods for examining individual change over time. BRAIN IMPAIR 2024; 25:IB24025. [PMID: 39636715 DOI: 10.1071/ib24025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2024] [Accepted: 11/19/2024] [Indexed: 12/07/2024]
Abstract
Background Depression is commonly studied post stroke, while anxiety is less studied. This study presents prevalence of depression and anxiety at 1- and 12-months post ischemic stroke alongside three methods for examining within-subjects change over time. Methods Participants were ischemic stroke patients of the Auckland Regional Community Stroke Study (ARCOS-V) with Hospital Anxiety and Depression Scale data at 1- (n =343) and 12-months (n =307). Change over time was examined using within-subjects repeated measures ANOVA, calculation of the Reliable Change Index, and a Sankey diagram of those meeting cut-off scores (>7) for caseness over time. Results Using repeated measures ANOVA, depression scores didn't change significantly over time, while anxiety symptoms decreased significantly. When reliable change was calculated, 4.2% of individuals had reliable decreases in anxiety symptoms, while 5.7% had reliable decreases in depression symptoms. Those who had a reliable decrease in one tended to have a reliable decrease in the other. In the Sankey, the proportion of those meeting the cut-off score for anxiety did not change over time (12.8 and 12.7% at 1- and 12-months), while those meeting the cut-off for depression increased slightly (3.7-4.5%) and those meeting cut-offs for both decreased from 10.4 to 8.1%. Conclusion The three methods produced very different findings. Use of cut-off scores is common but has limitations. Calculation of clinically reliable change is recommended. Further work is needed to ensure depression and anxiety are monitored over time post-stroke, and both should be the subject of intervention efforts in both acute and late stages post-stroke.
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Affiliation(s)
| | - Rita Krishnamurthi
- National Institute for Stroke and Applied Neuroscience, AUT University, Auckland, New Zealand
| | - Balakrishnan Nair
- National Institute for Stroke and Applied Neuroscience, AUT University, Auckland, New Zealand
| | - Anna Ranta
- Department of Medicine, University of Otago - Dunedin Campus, Dunedin, New Zealand
| | - Jeroen Douwes
- Research Centre for Hauora and Health, Massey University, Auckland, New Zealand
| | - Valery Feigin
- National Institute for Stroke and Applied Neuroscience, AUT University, Auckland, New Zealand
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Mols RE, Løgstrup BB, Bakos I, Horváth-Puhó E, Gustafsson F, Eiskjær H. Employment Status Following Heart Transplantation: Data From the Danish Nationwide Social Service Payment Register During 20 years. Transpl Int 2024; 37:12230. [PMID: 38694491 PMCID: PMC11061463 DOI: 10.3389/ti.2024.12230] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Accepted: 04/03/2024] [Indexed: 05/04/2024]
Abstract
Most studies on vocational rehabilitation after heart transplantation (HTX) are based on self-reported data. Danish registries include weekly longitudinal information on all public transfer payments. We intended to describe 20-year trends in employment status for the Danish heart-transplant recipients, and examine the influence of multimorbidity and socioeconomic position (SEP). Linking registry and Scandiatransplant data (1994-2018), we conducted a study in recipients of working age (19-63 years). The cohort contained 492 recipients (79% males) and the median (IQR) age was 52 years (43-57 years). Five years after HTX, 30% of the survived recipients participated on the labor market; 9% were in a flexible job with reduced health-related working capacity. Moreover, 60% were retired and 10% eligible for labor market participation were unemployed. Recipients with multimorbidity had a higher age and a lower prevalence of employment. Five years after HTX, characteristics of recipients with labor market participation were: living alone (27%) versus cohabitation (73%); low (36%) versus medium-high (64%) educational level; low (13%) or medium-high (87%) income group. Heart-transplant recipients with multimorbidity have a higher age and a lower prevalence of employment. Socioeconomically disadvantaged recipients had a lower prevalence of labor market participation, despite being younger compared with the socioeconomically advantaged.
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Affiliation(s)
- Rikke Elmose Mols
- Department of Clinical Medicine, Aarhus University, Aarhus, Denmark
- Department of Cardiology, Aarhus University Hospital, Aarhus, Denmark
| | - Brian Bridal Løgstrup
- Department of Clinical Medicine, Aarhus University, Aarhus, Denmark
- Department of Cardiology, Aarhus University Hospital, Aarhus, Denmark
| | - István Bakos
- Department of Clinical Epidemiology, Aarhus University Hospital and Aarhus University, Aarhus, Denmark
| | - Erzsébet Horváth-Puhó
- Department of Clinical Epidemiology, Aarhus University Hospital and Aarhus University, Aarhus, Denmark
| | - Finn Gustafsson
- Department of Clinical Medicine, University of Copenhagen, Copenhagen, Denmark
- Department of Cardiology, University Hospital of Copenhagen, Copenhagen, Denmark
| | - Hans Eiskjær
- Department of Clinical Medicine, Aarhus University, Aarhus, Denmark
- Department of Cardiology, Aarhus University Hospital, Aarhus, Denmark
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Tu Y, Wang X, Qiu R, Shen HW, Miller M, Rao J, Gao S, Huber PR, Hollander AD, Lange M, Garcia CR, Stubbs J. An Interactive Knowledge and Learning Environment in Smart Foodsheds. IEEE COMPUTER GRAPHICS AND APPLICATIONS 2023; 43:36-47. [PMID: 37030817 DOI: 10.1109/mcg.2023.3263960] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
The Internet of Food (IoF) is an emerging field in smart foodsheds, involving the creation of a knowledge graph (KG) about the environment, agriculture, food, diet, and health. However, the heterogeneity and size of the KG present challenges for downstream tasks, such as information retrieval and interactive exploration. To address those challenges, we propose an interactive knowledge and learning environment (IKLE) that integrates three programming and modeling languages to support multiple downstream tasks in the analysis pipeline. To make IKLE easier to use, we have developed algorithms to automate the generation of each language. In addition, we collaborated with domain experts to design and develop a dataflow visualization system, which embeds the automatic language generations into components and allows users to build their analysis pipeline by dragging and connecting components of interest. We have demonstrated the effectiveness of IKLE through three real-world case studies in smart foodsheds.
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Chen F, Wang J, Chen X, Yu L, An Y, Gong Q, Chen B, Xie S, Zhang L, Shuai Y, Zhao F, Chen Y, Li G, Zhang B. Development of models to predict 10-30-year cardiovascular disease risk using the Da Qing IGT and diabetes study. Diabetol Metab Syndr 2023; 15:62. [PMID: 36998090 PMCID: PMC10061839 DOI: 10.1186/s13098-023-01039-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 01/18/2023] [Accepted: 03/23/2023] [Indexed: 04/01/2023] Open
Abstract
BACKGROUND This study aimed to develop cardiovascular disease (CVD) risk equations for Chinese patients with newly diagnosed type 2 diabetes (T2D) to predict 10-, 20-, and 30-year of risk. METHODS Risk equations for forecasting the occurrence of CVD were developed using data from 601 patients with newly diagnosed T2D from the Da Qing IGT and Diabetes Study with a 30-year follow-up. The data were randomly assigned to a training and test data set. In the training data set, Cox proportional hazard regression was used to develop risk equations to predict CVD. Calibration was assessed by the slope and intercept of the line between predicted and observed probabilities of outcomes by quintile of risk, and discrimination was examined using Harrell's C statistic in the test data set. Using the Sankey flow diagram to describe the change of CVD risk over time. RESULTS Over the 30-year follow-up, corresponding to a 10,395 person-year follow-up time, 355 of 601 (59%) patients developed incident CVD; the incidence of CVD in the participants was 34.2 per 1,000 person-years. Age, sex, smoking status, 2-h plasma glucose level of oral glucose tolerance test, and systolic blood pressure were independent predictors. The C statistics of discrimination for the risk equations were 0.748 (95%CI, 0.710-0.782), 0.696 (95%CI, 0.655-0.704), and 0.687 (95%CI, 0.651-0.694) for 10-, 20-, and 30- year CVDs, respectively. The calibration statistics for the CVD risk equations of slope were 0.88 (P = 0.002), 0.89 (P = 0.027), and 0.94 (P = 0.039) for 10-, 20-, and 30-year CVDs, respectively. CONCLUSIONS The risk equations forecast the long-term risk of CVD in patients with newly diagnosed T2D using variables readily available in routine clinical practice. By identifying patients at high risk for long-term CVD, clinicians were able to take the required primary prevention measures.
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Affiliation(s)
- Fei Chen
- Department of Endocrinology, Friendship Hospital, Beijing, China
| | - Jinping Wang
- Department of Cardiology, Da Qing First Hospital, Da Qing, China
| | - Xiaoping Chen
- Department of Endocrinology, Friendship Hospital, Beijing, China
| | - Liping Yu
- Department of Endocrinology, Friendship Hospital, Beijing, China
| | - Yali An
- Endocrinology Centre, Fuwai Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Qiuhong Gong
- Endocrinology Centre, Fuwai Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Bo Chen
- Division of Non-Communicable Disease Control and Community Health, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Shuo Xie
- Institute of Clinical Medical Sciences, China-Japan Friendship Hospital, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Lihong Zhang
- Endocrinology Centre, Fuwai Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Ying Shuai
- Department of Endocrinology, Friendship Hospital, Beijing, China
| | - Fang Zhao
- Department of Endocrinology, Friendship Hospital, Beijing, China
| | - Yanyan Chen
- Endocrinology Centre, Fuwai Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Guangwei Li
- Department of Endocrinology, Friendship Hospital, Beijing, China
- Endocrinology Centre, Fuwai Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Bo Zhang
- Department of Endocrinology, Friendship Hospital, Beijing, China.
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Joshi S, P.J. P. A Collaborative Metaverse based A-La-Carte Framework for Tertiary Education (CO-MATE). Heliyon 2023; 9:e13424. [PMID: 36825184 PMCID: PMC9941942 DOI: 10.1016/j.heliyon.2023.e13424] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 10/13/2022] [Accepted: 01/30/2023] [Indexed: 02/09/2023] Open
Abstract
The paper aims to propose a futuristic educational and learning framework called CO-MATE (Collaborative Metaverse-based A-La-Carte Framework for Tertiary Education). The architectural framework of CO-MATE was conceptualized in a four-layered approach which depicts various infrastructure and service layer functionalities. CO-MATE is a technologically driven educational metaverse environment involving loosely coupled building blocks to provide an a-la-carte model for platform designers. For this, the authors had undertaken a systematic mapping study of the pre/post-COVID period to review the application of various emerging technologies. Further, the paper also discusses the core attributes and component offerings of CO-MATE for a technology-driven and automated immersive-learning environment and exemplifies the same through various use cases.
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Affiliation(s)
- Swati Joshi
- Centre for Development of Advanced Computing (C-DAC), Hyderabad, India
| | - Pramod P.J.
- Centre for Development of Advanced Computing (C-DAC), Hyderabad, India
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Ulbrich P, Waldner M, Furmanova K, Marques SM, Bednar D, Kozlikova B, Byska J. sMolBoxes: Dataflow Model for Molecular Dynamics Exploration. IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 2023; 29:581-590. [PMID: 36155456 DOI: 10.1109/tvcg.2022.3209411] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
We present sMolBoxes, a dataflow representation for the exploration and analysis of long molecular dynamics (MD) simulations. When MD simulations reach millions of snapshots, a frame-by-frame observation is not feasible anymore. Thus, biochemists rely to a large extent only on quantitative analysis of geometric and physico-chemical properties. However, the usage of abstract methods to study inherently spatial data hinders the exploration and poses a considerable workload. sMolBoxes link quantitative analysis of a user-defined set of properties with interactive 3D visualizations. They enable visual explanations of molecular behaviors, which lead to an efficient discovery of biochemically significant parts of the MD simulation. sMolBoxes follow a node-based model for flexible definition, combination, and immediate evaluation of properties to be investigated. Progressive analytics enable fluid switching between multiple properties, which facilitates hypothesis generation. Each sMolBox provides quick insight to an observed property or function, available in more detail in the bigBox View. The case studies illustrate that even with relatively few sMolBoxes, it is possible to express complex analytical tasks, and their use in exploratory analysis is perceived as more efficient than traditional scripting-based methods.
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A Natural Language Interface for Automatic Generation of Data Flow Diagram using Web Extraction Techniques. JOURNAL OF KING SAUD UNIVERSITY - COMPUTER AND INFORMATION SCIENCES 2023. [DOI: 10.1016/j.jksuci.2023.01.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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Deng D, Wu A, Qu H, Wu Y. DashBot: Insight-Driven Dashboard Generation Based on Deep Reinforcement Learning. IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 2023; 29:690-700. [PMID: 36179003 DOI: 10.1109/tvcg.2022.3209468] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Analytical dashboards are popular in business intelligence to facilitate insight discovery with multiple charts. However, creating an effective dashboard is highly demanding, which requires users to have adequate data analysis background and be familiar with professional tools, such as Power BI. To create a dashboard, users have to configure charts by selecting data columns and exploring different chart combinations to optimize the communication of insights, which is trial-and-error. Recent research has started to use deep learning methods for dashboard generation to lower the burden of visualization creation. However, such efforts are greatly hindered by the lack of large-scale and high-quality datasets of dashboards. In this work, we propose using deep reinforcement learning to generate analytical dashboards that can use well-established visualization knowledge and the estimation capacity of reinforcement learning. Specifically, we use visualization knowledge to construct a training environment and rewards for agents to explore and imitate human exploration behavior with a well-designed agent network. The usefulness of the deep reinforcement learning model is demonstrated through ablation studies and user studies. In conclusion, our work opens up new opportunities to develop effective ML-based visualization recommenders without beforehand training datasets.
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Chen R, Shu X, Chen J, Weng D, Tang J, Fu S, Wu Y. Nebula: A Coordinating Grammar of Graphics. IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 2022; 28:4127-4140. [PMID: 33909565 DOI: 10.1109/tvcg.2021.3076222] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
In multiple coordinated views (MCVs), visualizations across views update their content in response to users' interactions in other views. Interactive systems provide direct manipulation to create coordination between views, but are restricted to limited types of predefined templates. By contrast, textual specification languages enable flexible coordination but expose technical burden. To bridge the gap, we contribute Nebula, a grammar based on natural language for coordinating visualizations in MCVs. The grammar design is informed by a novel framework based on a systematic review of 176 coordinations from existing theories and applications, which describes coordination by demonstration, i.e., how coordination is performed by users. With the framework, Nebula specification formalizes coordination as a composition of user- and coordination-triggered interactions in origin and destination views, respectively, along with potential data transformation between the interactions. We evaluate Nebula by demonstrating its expressiveness with a gallery of diverse examples and analyzing its usability on cognitive dimensions.
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Shao Y, Chien TW, Jang FL. The use of radar plots with the Yk-index to identify which authors contributed the most to the journal of Medicine in 2020 and 2021: A bibliometric analysis. Medicine (Baltimore) 2022; 101:e31033. [PMID: 36397440 PMCID: PMC9666227 DOI: 10.1097/md.0000000000031033] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND A consensus exists that the first author and corresponding author make the most contribution to the publication of an article. The Y-index has been proposed to assess the scientific achievements of authors, institutions, and countries/regions (AIC/R for short) based on the number of first-author publications (FPs) and corresponding-author publications (RPs). Nonetheless, the Y-index is defined in terms of count and radian (represented by j and h) instead of using the relative radius and angle degree to simplify understanding. In the literature, a method for drawing radar diagrams online with the Y-index is also lacking. This study was conducted to enhance the Y-index with an additional relative radius denoted by k and the angle degree represented by h* (named Yk-index), include easy-to-use features (e.g., copying and pasting) for the delivery of the online Radar-Yk, and identify which one of AIC/R contributed the most to a scientific journal. METHODS From the Web of Science (WoS) database, we downloaded 9498 abstracts of articles published in the journal of Medicine (Baltimore) in 2020 and 2021. Three visual representations were used, including a Sankey diagram, a choropleth map, and a radar diagram, to identify the characteristics of contributions by AIC/R to Medicine (Baltimore) using the Yk-index (j, k, h*). A demonstration of Rada-Yk with easy-to-use features was given using the copy-and-paste technique. RESULTS We found that Qiu Chen (China), Sichuan University (China), China, and South Korea (based on regions, e.g., provinces/metropolitan areas in China) were the most productive AIC/R, with their Yk equal to 27,715, 12415.1, and 2045, respectively; a total of 85.6% of the published articles in Medicine (Baltimore) came from the 3 countries (China, South Korea, and Japan); and this method of drawing the Radar-Yk online was provided and successfully demonstrated. CONCLUSION A breakthrough was achieved by developing the online Radar-Yk to show the most contributions to Medicine (Baltimore). Visualization of Radar-Yk could be replicated for future academic research and applications on other topics in future bibliographical studies.
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Affiliation(s)
- Yang Shao
- School of Economics, Jiaxing University, Jiaxing, China
| | - Tsair-Wei Chien
- Department of Medical Research, Chi-Mei Medical Center, Tainan, Taiwan
| | - Fong-Lin Jang
- Department of Psychiatry, Chi Mei Medical Center, Tainan, Taiwan
- * Correspondence: Fong-Lin Jang, Chi-Mei Medical Center, 901 Chung Hwa Road, Yung Kung Dist., Tainan 710, Taiwan (e-mail: )
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Liu MY, Chien TW, Chou W. The Hirsch-index in self-citation rates with articles in Medicine (Baltimore): Bibliometric analysis of publications in two stages from 2018 to 2021. Medicine (Baltimore) 2022; 101:e31609. [PMID: 36397355 PMCID: PMC9666158 DOI: 10.1097/md.0000000000031609] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND The Hirsch-index (h-index) is a measure of academic productivity that incorporates both the quantity and quality of an author's output. However, it is still affected by self-citation behaviors. This study aims to determine the research output and self-citation rates (SCRs) in the Journal of Medicine (Baltimore), establishing a benchmark for bibliometrics, in addition to identifying significant differences between stages from 2018 to 2021. METHODS We searched the PubMed database to obtain 17,912 articles published between 2018 and 2021 in Medicine (Baltimore). Two parts were carried out to conduct this study: the categories were clustered according to the medical subject headings (denoted by midical subject headings [MeSH] terms) using social network analysis; 3 visualizations were used (choropleth map, forest plot, and Sankey diagram) to identify dominant entities (e.g., years, countries, regions, institutes, authors, categories, and document types); 2-way analysis of variance (ANOVA) was performed to differentiate outputs between entities and stages, and the SCR with articles in Medicine (Baltimore) was examined. SCR, as well as the proportion of self-citation (SC) in the previous 2 years in comparison to SC were computed. RESULTS We found that South Korea, Sichuan (China), and Beijing (China) accounted for the majority of articles in Medicine (Baltimore); ten categories were clustered and led by 3 MeSh terms: methods, drug therapy, and complications; and more articles (52%) were in the recent stage (2020-2021); no significant difference in counts was observed between the 2 stages based on the top ten entities using the forest plot (Z = 0.05, P = .962) and 2-way ANOVA (F = 0.09, P = .76); the SCR was 5.69% (<15%); the h-index did not differ between the 2 collections of self-citation inclusion and exclusion; and the SC in the previous 2 years accounted for 70% of the self-citation exclusion. CONCLUSION By visualizing the characteristics of a given journal, a breakthrough was made. Subject categories can be classified using MeSH terms. Future bibliographical studies are recommended to perform the 2-way ANOVA and then compare the outputs from 2 stages as well as the changes in h-indexes between 2 sets of self-citation inclusion and exclusion.
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Affiliation(s)
- Mei-Yuan Liu
- Department of Nutrition, Chi Mei Medical Center, Tainan, Taiwan
- Department of Nutrition and Health Sciences, Chang Jung Christian University, Tainan, Taiwan
- Department of Food Nutrition, Chung Hwa University of Medical Technology, Tainan, Taiwan
| | - Tsair-Wei Chien
- Department of Medical Research, Chi-Mei Medical Center, Tainan, Taiwan
| | - Willy Chou
- Department of Physical Medicine and Rehabilitation, Chiali Chi-Mei Hospital, Tainan, Taiwan
- Department of Physical Medicine and Rehabilitation, Chung San Medical University Hospital, Taichung, Taiwan
- *Correspondence: Willy Chou, Chiali Chi-Mei Hospital, Tainan 710, Taiwan (e-mail: )
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Yang TY, Chien TW, Lai FJ. Citation analysis of the 100 top-cited articles on the topic of hidradenitis suppurativa since 2013 using Sankey diagrams: Bibliometric analysis. Medicine (Baltimore) 2022; 101:e31144. [PMID: 36343026 PMCID: PMC9646634 DOI: 10.1097/md.0000000000031144] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
BACKGROUND Hidradenitis suppurativa (HS) is a chronic, inflammatory and debilitating dermatosis characterized by painful nodules, sinus tracts and abscesses in apocrine gland-bearing areas that predominantly affect women worldwide. New therapeutic interventions based on the clinical manifestations of patients have recently been introduced in numerous articles. However, which countries, journals, subject categories, and articles have the ultimate influence remain unknown. This study aimed to display influential entities in 100 top-cited HS-related articles (T100HS) and investigate whether medical subject headings (i.e., MeSH terms) can be used to predict article citations. METHODS T100HS data were extracted from PubMed since 2013. Subject categories were classified by MeSH terms using social network analysis. Sankey diagrams were applied to highlight the top 10 influential entities in T100HS from the three aspects of publication, citations, and the composited score using the hT index. The difference in article citations across subject categories and the predictive power of MeSH terms on article citations in T100HS were examined using one-way analysis of variance and regression analysis. RESULTS The top three countries (the US, Italy, and Spain) accounts for 54% of the T100HS. The T100HS impact factor (IF) is 12.49 (IF = citations/100). Most articles were published in J Am Acad Dermatol (15%; IF = 18.07). Eight subject categories were used. The "methods" was the most frequent MeSH term, followed by "surgery" and "therapeutic use". Saunte et al, from Roskilde Hospital, Denmark, had 149 citations in PubMed for the most cited articles. Sankey diagrams were used to depict the network characteristics of the T100HS. Article citations did not differ by subject category (F(7, 92) = 1.97, P = .067). MeSH terms were evident in the number of article citations predicted (F(1, 98) = 129.1106; P < .001). CONCLUSION We achieved a breakthrough by displaying the characteristics of the T100HS network on the Sankey diagrams. MeSH terms may be used to classify articles into subject categories and predict T100HS citations. Future studies can apply the Sankey diagram to the bibliometrics of the 100 most-cited articles.
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Affiliation(s)
- Ting-Ya Yang
- Department of Family Medicine, Chi-Mei Medical Center, Tainan, Taiwan
| | - Tsair-Wei Chien
- Department of Medical Research, Chi-Mei Medical Center, Tainan, Taiwan
| | - Feng-Jie Lai
- Department of Dermatology, Chi-Mei Medical Center, Tainan, Taiwan
- * Correspondence: Feng-Jie Lai, Department of Dermatology, Chi-Mei Medical Center, No. 901, Zhonghua Rd., Yongkang Dist., Tainan City 710, Tainan, Taiwan (e-mail: )
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Li MJ, Chien TW, Liao KW, Lai FJ. Using the Sankey diagram to visualize article features on the topics of whole-exome sequencing (WES) and whole-genome sequencing (WGS) since 2012: Bibliometric analysis. Medicine (Baltimore) 2022; 101:e30682. [PMID: 36197161 PMCID: PMC9509026 DOI: 10.1097/md.0000000000030682] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Abstract
BACKGROUND Sequencing technologies, such as whole-exome sequencing (WES) and whole-genome sequencing (WGS), have been increasingly applied to medical research in recent years. Which countries, journals, and institutes (called entities) contributed most to the fields (WES/WGS) remains unknown. Temporal bar graphs (TBGs) are frequently used in trend analysis of publications. However, how to draw the TBG on the Sankey diagram is not well understood in bibliometrics. We thus aimed to investigate the evolution of article entities in the WES/WGS fields using publication-based TBGs and compare the individual research achievements (IRAs) among entities. METHODS A total of 3599 abstracts downloaded from icite analysis were matched to entities, including article identity numbers, citations, publication years, journals, affiliated countries/regions of origin, and medical subject headings (MeSH terms) in PubMed on March 12, 2022. The relative citation ratio (RCR) was extracted from icite analysis to compute the hT index (denoting the IRA, taking both publications and citations into account) for each entity in the years between 2012 and 2021. Three types of visualizations were applied to display the trends of publications (e.g., choropleth maps and the enhanced TBGs) and IRAs (e.g., the flowchart on the Sankey diagram) for article entities in WES/WGS. RESULTS We observed that the 3 countries (the US, China, and the UK) occupied most articles in the WES/WGS fields since 2012, the 3 entities (i.e., top 5 journals, research institutes, and MeSH terms) were demonstrated on the enhanced TBGs, the top 2 MeSH terms were genetics and methods in WES and WGS, and the IRAs of 6 article entities with their hT-indices were succinctly and simultaneously displayed on a single Sankey diagram that was never launched in bibliographical studies. CONCLUSION The number of WES/WGS-related articles has dramatically increased since 2017. TBGs, particularly with hTs on the Sankey, are recommended for research on a topic (or in a discipline) to compare trends of publications and IRAs for entities in future bibliographical studies.
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Affiliation(s)
- Meng-Ju Li
- Department of Pediatrics, National Taiwan University Hsin-Chu Hospital, Hsinchu, Taiwan
- Department of Biological Science and Technology, College of Biological Science and Technology, National Yang Ming Chiao Tung University, Hsinchu, Taiwan
| | - Tsair-Wei Chien
- Department of Medical Research, Chi-Mei Medical Center, Tainan, Taiwan
| | - Kuang-Wen Liao
- Department of Biological Science and Technology, College of Biological Science and Technology, National Yang Ming Chiao Tung University, Hsinchu, Taiwan
- Institute of Molecular Medicine and Bioengineering, National Yang Ming Chiao Tung University, Hsinchu, Taiwan
| | - Feng-Jie Lai
- Department of Dermatology, Chi Mei Medical Center, Tainan, Taiwan
- Center for General Education, Southern Taiwan University of Science and Technology, Tainan, Taiwan
- *Correspondence: Feng-Jie Lai, Chi-Mei Medical Center, 901 Chung Hwa Road, Yung Kung Dist., Tainan 710, Taiwan (e-mail: )
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Tsai YC, Chien TW, Wu JW, Lin CH. Using the alluvial plot to visualize the network characteristics of 100 top-cited articles on attention-deficit/hyperactivity disorder (ADHD) since 2011: Bibliometric analysis. Medicine (Baltimore) 2022; 101:e30545. [PMID: 36123874 PMCID: PMC9478305 DOI: 10.1097/md.0000000000030545] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/26/2022] Open
Abstract
BACKGROUND Attention-deficit/hyperactivity disorder (ADHD) is a common neuro developmental disorder that affects children and adolescents. It is estimated that the prevalence of ADHD is 7.2% throughout the world. There have been a number of articles published in the literature related to ADHD. However, it remains unclear which countries, journals, subject categories, and articles have the greatest influence. The purpose of this study was to display influential entities in 100 top-cited ADHD-related articles (T100ADHD) on an alluvial plot and apply alluvial to better understand the network characteristics of T100ADHD across entities. METHODS Using the PubMed and Web of Science (WoS) databases, T100ADHD data since 2011 were downloaded. The dominant entities were compared using alluvial plots based on citation analysis. Based on medical subject headings (MeSH terms) and research areas extracted from PubMed and WoS, social network analysis (SNA) was performed to classify subject categories. To examine the difference in article citations among subject categories and the predictive power of MeSH terms on article citations in T100ADHD, one-way analysis of variance and regression analysis were used. RESULTS The top 3 countries (the United States, the United Kingdom, and the Netherlands) accounted for 75% of T100ADHD. The most citations per article were earned by Brazil (=415.33). The overall impact factor (IF = citations per 100) of the T100ADHD series is 188.24. The most cited article was written by Polanczyk et al from Brazil, with 772 citations since 2014. The majority of the articles were published and cited in Biol Psychiatry (13%; IF = 174.15). The SNA was used to categorize 6 subject areas. On the alluvial plots, T100ADHD's network characteristics were successfully displayed. There was no difference in article citations among subject categories (F = 1.19, P = .320). The most frequently occurring MeSH terms were physiopathology, diagnosis, and epidemiology. A significant correlation was observed between MeSH terms and the number of article citations (F = 25.36; P < .001). CONCLUSION Drawing the alluvial plot to display network characteristics in T100ADHD was a breakthrough. Article subject categories can be classified using MeSH terms to predict T100ADHD citations. Bibliometric analyses of 100 top-cited articles can be conducted in the future.
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Affiliation(s)
- Ya-Ching Tsai
- Department of Psychiatry, Kai-Suan Psychiatric Hospital, Kaohsiung, Taiwan
| | - Tsair-Wei Chien
- Department of Medical Research, Chi-Mei Medical Center, Tainan, Taiwan
| | - Jian-Wei Wu
- Department of Physical Medicine and Rehabilitation, Taipei Medical University Hospital, Taipei, Taiwan
| | - Chien-Ho Lin
- Department of Psychiatry, Chi Mei Medical Center, Tainan, Taiwan
- Deparment of childcare and education, South Tainan University of science and technology, Tainan, Taiwan
- *Correspondence: Chien-Ho Lin, Chi-Mei Medical Center, 901 Chung Hwa Road, Yung Kung Dist., Tainan 710, Taiwan (e-mail: )
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16
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Lee YL, Chien TW, Wang JC. Using Sankey diagrams to explore the trend of article citations in the field of bladder cancer: Research achievements in China higher than those in the United States. Medicine (Baltimore) 2022; 101:e30217. [PMID: 36042603 PMCID: PMC9410696 DOI: 10.1097/md.0000000000030217] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
BACKGROUND Urology authors are required to evaluate research achievements (RAs) in the field of bladder cancer (BC). However, no such bibliometric indices were appropriately applied to quantify the contributions to BC in research. In this study, we examined 3 questions: whether RAs in China are higher than those in the United States, how the Sankey-based temporal bar graph (STBG) may be applied to the analysis of the trend of article citations in the BC field, and what subthemes were reflected in China's and the United States' proportional counts in BC articles. METHODS Using the PubMed search engine to download data, we conducted citation analyses of BC articles authored by urology scholars since 2012. A total of 9885 articles were collected and analyzed using the relative citations ratios (RCRs) and the STBG. The 3 research goals were verified using the RCRs, the STBG, and medical subject headings (MesH terms). The choropleth map and the forest plot were used to 1 highlight the geographical distributions of publications and RCRs for countries/regions and 2 compare the differences in themes (denoted by major MeSH terms on proportional counts using social network analysis to cluster topics) between China and the United States. RESULTS There was a significant rise over the years in RCRs within the 9885 BC articles. We found that the RCRs in China were substantially higher than those in the United States since 2017, the STBG successfully explored the RCR trend of BC articles and was easier and simpler than the traditional line charts, area plots, and TBGs, and the subtheme of genetics in China has a significantly higher proportion of articles than the United States. The most productive and influential countries/regions (denoted by RCRs) were {Japan, Germany, and Italy} and {Japan, Germany, New York}, respectively, when the US states and provinces/metropolitan cities/areas in China were separately compared to other countries/regions. CONCLUSIONS With an overall increase in publications and RCRs on BC articles, research contributions assessed by the RCRs and visualized by the STBGs are suggested for use in future bibliographical studies.
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Affiliation(s)
- Yen-Ling Lee
- Department of Oncology, Tainan Hospital, Ministry of Healthy and Welfare, Tainan, Taiwan
- Department of Environmental and Occupational Health, College of Medicine, National Cheng Kung University, Tainan, Taiwan
| | - Tsair-Wei Chien
- Department of Medical Research, Chi-Mei Medical Center, Tainan, Taiwan
| | - Jhih-Cheng Wang
- Department of electrical engineering, Southern Taiwan University of Science and Technology, Tainan, Taiwan
- Division of Urology, Department of Surgery, Chi Mei Medical Center, Tainan, Taiwan
- Medical Education Center, Chi Mei Medical Center
- *Correspondence: Jhih-Cheng Wang, Chi-Mei Medical Center, 901 Chung Hwa Road, Yung Kung Dist., Tainan 710, Taiwan (e-mail: )
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Otto E, Culakova E, Meng S, Zhang Z, Xu H, Mohile S, Flannery MA. Overview of Sankey flow diagrams: Focusing on symptom trajectories in older adults with advanced cancer. J Geriatr Oncol 2022; 13:742-746. [PMID: 35000890 DOI: 10.1016/j.jgo.2021.12.017] [Citation(s) in RCA: 54] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2021] [Revised: 12/20/2021] [Accepted: 12/23/2021] [Indexed: 12/01/2022]
Abstract
This perspectives paper provides an overview of how to read and interpret a Sankey, examples using symptom data from older adults with advanced cancer, a synopsis of medical literature, and comments on creating and using the diagram for presentation of data. From prior reports and our own, we conclude Sankeys are an excellent tool for visualizing the changing status of older patients with cancer. Older adult symptom data is used as an example with data dispalyed in a range of Sankey flow diagrams. Because there is large heterogeneity in aging, different subgroups can be examined. In a single diagram, Sankey can show both the likelihood and variability of patients' future status from their current status.
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Affiliation(s)
- Ethan Otto
- University of Rochester Medical Center, Rochester, NY, United States of America.
| | - Eva Culakova
- University of Rochester Medical Center, Rochester, NY, United States of America.
| | - Sixu Meng
- University of California, Berkeley, CA, United States of America
| | - Zhihong Zhang
- University of Rochester Medical Center, School of Nursing. Rochester, NY, United States of America.
| | - Huiwen Xu
- Department of Preventive Medicine and Population Health, Sealy Center on Aging, University of Texas Medical Branch Galveston, TX, United States of America.
| | - Supriya Mohile
- University of Rochester Medical Center, Rochester, NY, United States of America.
| | - Marie A Flannery
- University of Rochester Medical Center, School of Nursing. Rochester, NY, United States of America.
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Khan S, Nguyen PH, Abdul-Rahman A, Bach B, Chen M, Freeman E, Turkay C. Propagating Visual Designs to Numerous Plots and Dashboards. IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 2022; 28:86-95. [PMID: 34587060 DOI: 10.1109/tvcg.2021.3114828] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
In the process of developing an infrastructure for providing visualization and visual analytics (VIS) tools to epidemiologists and modeling scientists, we encountered a technical challenge for applying a number of visual designs to numerous datasets rapidly and reliably with limited development resources. In this paper, we present a technical solution to address this challenge. Operationally, we separate the tasks of data management, visual designs, and plots and dashboard deployment in order to streamline the development workflow. Technically, we utilize: an ontology to bring datasets, visual designs, and deployable plots and dashboards under the same management framework; multi-criteria search and ranking algorithms for discovering potential datasets that match a visual design; and a purposely-design user interface for propagating each visual design to appropriate datasets (often in tens and hundreds) and quality-assuring the propagation before the deployment. This technical solution has been used in the development of the RAMPVIS infrastructure for supporting a consortium of epidemiologists and modeling scientists through visualization.
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Lumina: an adaptive, automated and extensible prototype for exploring, enriching and visualizing data. J Vis (Tokyo) 2021. [DOI: 10.1007/s12650-020-00718-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Yu B, Silva CT. FlowSense: A Natural Language Interface for Visual Data Exploration within a Dataflow System. IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS 2020; 26:1-11. [PMID: 31443010 DOI: 10.1109/tvcg.2019.2934668] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Dataflow visualization systems enable flexible visual data exploration by allowing the user to construct a dataflow diagram that composes query and visualization modules to specify system functionality. However learning dataflow diagram usage presents overhead that often discourages the user. In this work we design FlowSense, a natural language interface for dataflow visualization systems that utilizes state-of-the-art natural language processing techniques to assist dataflow diagram construction. FlowSense employs a semantic parser with special utterance tagging and special utterance placeholders to generalize to different datasets and dataflow diagrams. It explicitly presents recognized dataset and diagram special utterances to the user for dataflow context awareness. With FlowSense the user can expand and adjust dataflow diagrams more conveniently via plain English. We apply FlowSense to the VisFlow subset-flow visualization system to enhance its usability. We evaluate FlowSense by one case study with domain experts on a real-world data analysis problem and a formal user study.
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Furcila D, García M, Toader C, Morales J, LaTorre A, Rodríguez Á, Pastor L, DeFelipe J, Alonso-Nanclares L. InTool Explorer: An Interactive Exploratory Analysis Tool for Versatile Visualizations of Neuroscientific Data. Front Neuroanat 2019; 13:28. [PMID: 30914926 PMCID: PMC6421977 DOI: 10.3389/fnana.2019.00028] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Accepted: 02/18/2019] [Indexed: 02/05/2023] Open
Abstract
The bottleneck for progress in many research areas within neuroscience has shifted from the data acquisition to the data analysis stages. In the present article, we propose a method named InTool Explorer that we have developed to perform interactive exploratory data analysis, focusing on neuroanatomy as an example of its utility. This tool is freely-available software that has been designed to facilitate the study of complex neuroscience data. InTool Explorer requires no more than an internet connection and a web browser. The main contribution of this tool is to provide a user-designed canvas for data visualization and interaction, to perform specific exploratory tasks according to the user needs. Moreover, InTool Explorer permits visualization of the datasets in a very dynamic and versatile way using a linked-card approach. For this purpose, the tool allows the user to select among different predefined card types. Each card type offers an abstract data representation, a filtering tool or a set of statistical analysis methods. Additionally, InTool Explorer makes it possible linking raw images to the data. These images can be used by InTool Explorer to define new customized filtering cards. Another significant contribution of this tool is that it allows fast visualization of the data, error finding, and re-evaluation to establish new hypotheses or new lines of research. Thus, regarding its practical application in the laboratory, InTool Explorer provides a new opportunity to study and analyze neuroscience data prior to any statistical analysis being carried out.
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Affiliation(s)
- Diana Furcila
- Laboratorio Cajal de Circuitos Corticales (CTB), Universidad Politécnica de Madrid (UPM), Madrid, Spain.,Centro de Investigación Biomédica en Red sobre Enfermedades Neurodegenerativas (CIBERNED), Madrid, Spain.,Facultad de Psicología, Universidad Nacional de Educación a Distancia (UNED), Madrid, Spain
| | - Marcos García
- Escuela Técnica Superior de Ingeniería Informática, Universidad Rey Juan Carlos, Madrid, Spain.,Center for Computational Simulation (CCS), Universidad Politécnica de Madrid (UPM), Madrid, Spain
| | - Cosmin Toader
- Escuela Técnica Superior de Ingeniería Informática, Universidad Rey Juan Carlos, Madrid, Spain
| | | | - Antonio LaTorre
- Center for Computational Simulation (CCS), Universidad Politécnica de Madrid (UPM), Madrid, Spain.,Escuela Técnica Superior de Ingenieros Informáticos, Universidad Politécnica de Madrid (UPM), Madrid, Spain
| | - Ángel Rodríguez
- Center for Computational Simulation (CCS), Universidad Politécnica de Madrid (UPM), Madrid, Spain.,Escuela Técnica Superior de Ingenieros Informáticos, Universidad Politécnica de Madrid (UPM), Madrid, Spain
| | - Luis Pastor
- Escuela Técnica Superior de Ingeniería Informática, Universidad Rey Juan Carlos, Madrid, Spain.,Center for Computational Simulation (CCS), Universidad Politécnica de Madrid (UPM), Madrid, Spain
| | - Javier DeFelipe
- Laboratorio Cajal de Circuitos Corticales (CTB), Universidad Politécnica de Madrid (UPM), Madrid, Spain.,Centro de Investigación Biomédica en Red sobre Enfermedades Neurodegenerativas (CIBERNED), Madrid, Spain.,Department of Functional and Systems Neurobiology, Instituto Cajal (CSIC), Madrid, Spain
| | - Lidia Alonso-Nanclares
- Laboratorio Cajal de Circuitos Corticales (CTB), Universidad Politécnica de Madrid (UPM), Madrid, Spain.,Centro de Investigación Biomédica en Red sobre Enfermedades Neurodegenerativas (CIBERNED), Madrid, Spain.,Department of Functional and Systems Neurobiology, Instituto Cajal (CSIC), Madrid, Spain
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Mei H, Ma Y, Wei Y, Chen W. The design space of construction tools for information visualization: A survey. ACTA ACUST UNITED AC 2018. [DOI: 10.1016/j.jvlc.2017.10.001] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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