Network Visualization Research Articles

Vessel Geometry Estimation for Patients with Peripheral Artery Disease

The estimation of vessels’ centerlines is a critical step in assessing the geometry of the vessel, the topological representation of the vessel tree, and vascular network visualization. In this research, we present a novel method for obtaining geometric parameters from peripheral arteries in 3D medical binary volumes. Our approach focuses on centerline extraction, which yields smooth and robust results. The procedure starts with a segmented 3D binary volume, from which a distance map is generated using the Euclidean distance transform. Subsequently, a skeleton is extracted, and seed points and endpoints are identified. A search methodology is used to derive the best path on the skeletonized 3D binary array while tracking from the goal points to the seed point. We use the distance transform to calculate the distance between voxels and the nearest vessel surface, while also addressing bifurcations when vessels divide into multiple branches. The proposed method was evaluated on 22 real cases and 10 synthetically generated vessels. We compared our method to different state-of-the-art approaches and demonstrated its better performance. The proposed method achieved an average error of 1.382 mm with real patient data and 0.571 mm with synthetic data, both of which are lower than the errors obtained by other state-of-the-art methodologies. This extraction of the centerline facilitates the estimation of multiple geometric parameters of vessels, including radius, curvature, and length.

Geometric separability of mesoscale patterns in embedding representation and visualization of multidimensional data and complex networks

Geometric separability of mesoscale patterns in embedding representation and visualization of multidimensional data and complex networks

Bibliometric Analysis (2000-2024) of Research on Artificial Intelligence in Nursing.

We conducted a bibliometrics analysis utilizing the Web of Science database, selecting 1925 articles concerning artificial intelligence (AI) in nursing. The analysis utilized the network visualization tool VOSviewer to explore global collaborations, highlighting prominent roles played by the United States, China, and Japan, as well as institutional partnerships involving Columbia University and Harvard Medical School. Keyword analysis identified prevalent themes and co-citation analysis highlighted influential journals. A notable increase in AI-related publications in nursing was observed over time, reflecting the growing interest in AI in nursing. However, high-quality clinical research and increased scientific collaboration are needed.

Bibliometric Analysis on Gender and Spirituality in Literary Studies

Publications on gender and spirituality have been prominently featured in many journals indexed by various databases. This article employs bibliometric analysis to investigate publication trends on gender and spiritual issues in literary studies within the Scopus database. This research utilized the VOSviewer application to analyze keyword co-authorship, co-occurrence, and citations. The bibliographic data for this study were downloaded from the Scopus database on January 8, 2024, with a search restriction over the last ten years between 2014 and 2023, and under two fields: 1) social sciences and 2) arts and humanities. The results show that of the 34 eligible publications, there are four main highlights. First, the co-authorship of research publications is relatively low and is only undertaken by a few researchers. Second, the co-occurrence of keywords reveals three main research trends over these ten years: gender-based experiences and practices, gender-based concepts, and religion and spirituality. However, keywords related to literary criticism did not appear. Third, the number of citations for documents is uneven and is dominated only by certain authors, affiliations, and countries. Lastly, network visualization reveals limited interconnectivity between topics, such as gender spirituality and literature. These results conclude that interdisciplinary research in the field of literary criticism remains widely open to address existing research gaps and encourage researchers to collaborate on related topics.

Recent Global Trends and Hotspots in Occipitocervical Fusion: A Bibliometric Analysis and Visualization Study

Occipitocervical arthrodesis has a variety of indications to treat craniocervical and atlantoaxial pathologies for which a selective cervical fusion would not provide sufficient stability. Over time, the indications for occipitocervical fusions (OCF) have evolved, as new technologies and surgical techniques were developed. In this bibliometric analysis, we aim to explore the progression of OCF literature over time, analyzing the trends in publications and citations, publishing countries and authors, keywords and topics. The Web of Science database was used for data retrieval on July 3rd, 2024, with the search "occipitocervical fusion" OR "occipito-cervical fusion" OR "occipitocervical arthrodesis" OR "occipital cervical fusion" OR "occipital cervical arthrodesis" OR ("OCF" AND "spine surgery"). Excel was used to create the citation analysis and publication trend figures, along with the publishing countries and author analysis. The bibliometric software VosViewer was used to generate the keyword co-occurrence network visualizations. Overall, 762 articles were extracted. The number of pertinent publications and citations increased until 2020 before beginning to decrease. We found that Ehlers Danlos syndrome (EDS) has become a more prevalent topic, as the association between EDS and craniocervical instability has received further scrutiny. "Dysphagia" continues to be a commonly cited topic, while, conversely, rheumatoid arthritis has decreased in publication frequency, possibly related to advances in medical management and surgical techniques. Overall, the United States of America, China, and Japan are the top publishing countries. This analysis of OCF literature provides a helpful overview of emerging trends and clinician concerns, especially as seen through the perspective of time.

IntAct Database for Accessing IMEx's Contextual Metadata of Molecular Interactions.

The International Molecular Exchange Consortium (IMEx) has evolved into a vital partnership of open resources dedicated to curating molecular interaction data from the scientific literature. This consortium, which includes IntAct, MINT, MatrixDB, and DIP, is a collaborative effort with a central mission of aggregating detailed molecular interaction experimental evidence in a machine-readable format, supported by controlled vocabularies and standard ontologies. The IntAct molecular interaction database (www.ebi.ac.uk/intact), as an IMEx partner, serves as a valuable portal for accessing IMEx data through user-friendly search options and an array of interactive filters. The resource currently hosts an extensive repository of 1,293,508 binary interactions meticulously captured from 75,098 experiments documented in 23,366 publications (as of the February 2024 release), with this corpora being added to by regular data releases. IMEx curation policy has consistently prioritized a fine-grained data and curation model, with a focus on capturing the relevant experimental details essential for interpreting molecular interaction data effectively. Our curation process is designed to support the generation of interactomes tailored to contexts such as disease-specific or tissue-/cell-type-specific interactomes. These interactions are ranked according to a scoring system based on the Proteomics Standard Initiative Molecular Interaction (PSI MI) standards. This scoring system allows users to assess the degree of confidence in binary interactions, enhancing the value of the data. The resource provides insights into the nature of relationships among interacting partners as defined by the experimental setup and the associated biological context. Interactive filters enable users to navigate these rich, multilayered data, promoting a deeper understanding of biological complexity. Additionally, the IntAct website fosters the creation of networks for collaborative analyses by the scientific community. The recent transformation of the IntAct website, supported by a graph-type database, empowers users to execute custom queries tailored to their specific research interests. This article illustrates the diverse levels of annotations available for interactions and the multiple search options at users' disposal to access data of interest. © 2024 European Molecular Biology Laboratory, European Bioinformatics Institute. Current Protocols published by Wiley Periodicals LLC. Basic Protocol 1: Using Quick Search, network visualization, and filters Support Protocol: Accessing fine annotations from intact: Unlocking the molecular details Alternate Protocol: Using batch search: Querying multiple interactors Basic Protocol 2: Using advanced search: Precision and customization.

Kidney medicine meets computer vision: a bibliometric analysis.

Rapid advances in computer vision (CV) have the potential to facilitate the examination, diagnosis, and treatment of diseases of the kidney. The bibliometric study aims to explore the research landscape and evolving research focus of the application of CV in kidney medicine research. The Web of Science Core Collection was utilized to identify publications related to the research or applications of CV technology in the field of kidney medicine from January 1, 1900, to December 31, 2022. We analyzed emerging research trends, highly influential publications and journals, prolific researchers, countries/regions, research institutions, co-authorship networks, and co-occurrence networks. Bibliographic information was analyzed and visualized using Python, Matplotlib, Seaborn, HistCite, and Vosviewer. There was an increasing trend in the number of publications on CV-based kidney medicine research. These publications mainly focused on medical image processing, surgical procedures, medical image analysis/diagnosis, as well as the application and innovation of CV technology in medical imaging. The United States is currently the leading country in terms of the quantities of published articles and international collaborations, followed by China. Deep learning-based segmentation and machine learning-based texture analysis are the most commonly used techniques in this field. Regarding research hotspot trends, CV algorithms are shifting toward artificial intelligence, and research objects are expanding to encompass a wider range of kidney-related objects, with data dimensions used in research transitioning from 2D to 3D while simultaneously incorporating more diverse data modalities. The present study provides a scientometric overview of the current progress in the research and application of CV technology in kidney medicine research. Through the use of bibliometric analysis and network visualization, we elucidate emerging trends, key sources, leading institutions, and popular topics. Our findings and analysis are expected to provide valuable insights for future research on the use of CV in kidney medicine research.

Comparing Climate Change Content and Comments across Instagram Reels, TikTok, and YouTube Shorts and Long Videos

ABSTRACTSocial media plays a vital role as a communication channel for pertinent topics, including climate change. This paper investigates the content and comments of short and long‐format videos on Instagram, TikTok, and YouTube to compare climate change discourse on these platforms. Eighty videos and their respective 69,135 comments were collected and analyzed using content analysis, statistical analysis, data visualization, and social network analysis. Our findings show that in our dataset, videos in the short‐format (Instagram, TikTok, and YouTube Shorts) provide all sorts of content, while YouTube long videos only focus on educational and activism content. The short‐format videos also show different stances towards climate change, such as a climate change denier stance, while YouTube long videos do not. For comments, videos in the short‐format had less engagement compared to YouTube long videos. Our findings inform implications for both researchers and social media platform designers.

Changes in University Students’ Behaviour and Study Burnout Risk During ACT-based Online Course Intervention: A Mixed Methods Study

Previous research in higher education has shown that Acceptance and Commitment Therapy (ACT) -based interventions have beneficial effects on students’ well-being. However, not much is known about the range of behaviour changes behind these outcomes.In this mixed methods study, we explored the variety of the changes ACT-based course participating university students (N=101) describe in their reflective learning reports. We did so by applying the Extended Evolutionary Meta Model (EEMM) in abductive content analysis, and by applying network visualisation of the various study burnout risk change groups.The results showed that the largest proportion of students described changes in the EEMM dimension of overt behaviour (75%), especially time and effort management. Vitality, and decreased distress were the most described outcomes related to behaviour changes.Study burnout risk decreased significantly at the course level. When observing the interrelations of behaviour changes in the networks of burnout risk change groups, alongside time and effort management, attentional and affective dimensions representing present moment awareness and acceptance were central changes in the group that had the greatest reduction in burnout risk. These findings contribute to the need to map out the variety of beneficial mechanisms and serve further idiographic research about changes during study-integrated ACT-based interventions.

Global Incidence and Trends of Ocular cancer: A bibliometric analysis

BackgroundOcular cancer represents a significant threat to vision and life among various eye diseases. Conjunctival melanoma is regarded as one of the most feared and unpredictable ocular tumors. Considering the global differences in the occurrence of ocular melanoma across different races and regions, this study provides a thorough examination of the current state of research pertaining to the epidemiology of ocular and conjunctival cancers. MethodsThis bibliometrics analysis used the Web of Science Core Collection (WoSCC) to collect data from publications on the epidemiology of ocular cancer, including relevant literature from 1951 to 2024. We examined indicators including t publication counts, citation rates, and data on contributing countries, institutions, and journals. Use VOSviewer and CiteSpace for network visualization and Microsoft Excel for data management. Our analysis reveals key trends in the epidemiology of ocular cancer across countries and identifies prominent keywords. ResultsA total of 406 articles on ocular cancer were identified, with significant contributions from the United States, the United Kingdom, and Germany. Denmark also plays a crucial role, particularly in conjunctival cancer research. Carol L. Shields is a leading figure widely recognized for her influential citations in ocular cancer epidemiology. The top publication platforms include the British Journal of Ophthalmology, Ophthalmic Epidemiology, and Ophthalmology. Key terms in ocular cancer research focus on prevalence, survival, and epidemiology, while conjunctival cancer studies emphasize malignant melanoma, conjunctiva, and epidemiology. Through keyword co-occurrence and burst analysis, trending topics include prevalence, risk factors, uveal melanoma, choroidal melanoma, malignant melanoma, squamous cell carcinoma, and conjunctiva. For conjunctival cancer, key research areas expected to remain prominent are cell carcinoma, management, recurrence, ocular surface squamous neoplasia, and pathology. ConclusionThis analysis represents the first comprehensive bibliometric review mapping the trends and the knowledge structure in ocular cancer research, specifically from an epidemiological viewpoint. The results meticulously explore and encapsulate the research frontiers for scholars dedicated to the epidemiology of conjunctival cancer.

Trends in Water Quality Research: A Bibliometric Study of Factors and Parameters in Drinking Water

ABSTRACT This study examines trends in water quality research through a bibliometric approach with the aim of mapping dominant factors and parameters and identifying research gaps in this area. The introduction of this research highlights the importance of water quality as a global issue that affects public health and environmental sustainability. The main objective of the study was to analyze water quality-related publications published between 2017 and 2024 using the Publish or Perish application to identify trends, distribution, and research focus. The method used involved collecting data from the 50 highest-ranked journals on Google Scholar, then classifying them by year of publication, publication type, number of citations, and author country. The data obtained was analyzed with the VOSviewer application to generate network visualizations, overlays, and densities to reveal the linkages between research topics. The analysis showed that research on water quality is highly diversified with the main focus on factors affecting water quality and the development of assessment methods. The publications reviewed highlighted global challenges in water quality management and the need for cross-disciplinary collaboration. The conclusions of this study emphasize several research gaps, such as the need for the development of more sensitive water quality indices, the application of new technologies, and further research in local and regional contexts. This research provides valuable insights into current research trends and encourages further exploration to improve water quality management effectively and sustainably. Keywords: Water Quality, Bibliometrics, Assessment Methods, Emerging Technologies, Research Gaps.

Opportunities promoting social inclusion in elementary school learning context: study of Merdeka Curriculum the Indonesian policies on GEDSI (Gender, Disability, and Social Inclusion) framework

Social inclusion is an effort to improve the dignity of disadvantaged individuals so that they can engage in social life. This research explains how the Merdeka Curriculum can direct students as social beings who have character and can accept various roles in the surrounding community. In essence, social inclusion is beginning to take shape and play a crucial role in education. The purpose of this research is to examine the potential of the Merdeka Curriculum policy in promoting social inclusion in the elementary school learning context. Bibliometric analysis is employed to examine publication trends using the Google Scholar database from 2013 to 2023. A total of 760 articles gathered from Publish or Perish are then subjected to data visualization analysis using a VOS viewer to obtain network, overlay, and density visualization. The research findings indicate that studies related to the Merdeka Curriculum significantly increased in 2023 in line with its implementation, but studies addressing social inclusion were relatively scarce. Based on network visualization, 59 terms are grouped into 9 clusters. The term 'Multiculturalism' exhibited a relatively high link strength in connection with terms such as 'new curriculum,' 'modern,' and 'national curriculum' in the current context of the Merdeka Curriculum policy. Other terms found include 'diversity,' 'social inclusion,' and 'social cohesion.' The co-authorship analysis identified 1543 contributing authors. Given Indonesia's multicultural nature, characterized by diversity in various dimensions, Researchers focus the findings of this research as a guide for educators to consistently provide inclusive, comprehensive, and interesting teaching approaches to all students.

Research Mapping of Fisheries Resource Management in Coastal Areas: A Bibliometric Analysis

This study conducts a comprehensive bibliometric analysis of the literature on government budget efficiency. This bibliometric analysis explores the evolution and integration of themes within fisheries management research from 1959 to 2024. Utilizing VOSviewer for keyword co-occurrence and network visualization, the study identifies dominant themes such as "fishery management system," "conservation," and "sustainability," along with their interconnections and shifts over time. The analysis highlights a multidisciplinary approach, integrating ecological, economic, and technological aspects to address the challenges of sustainable fisheries management. The prominence of terms related to management strategies and environmental conservation reflects a global commitment to sustainable practices. Collaborative patterns among leading researchers and the evolution of research themes underscore the dynamic nature of this field, emphasizing adaptive management strategies that are informed by both socio-economic and ecological dynamics. The findings suggest that the ongoing integration of advanced technologies and interdisciplinary approaches is crucial for developing effective fisheries management practices that can adapt to environmental uncertainties and ensure the sustainability of both marine resources and dependent communities.

ITraNet: A Web-Based Platform for integrated Trans-Omics Network Visualization and Analysis

Abstract Motivation Visualization and analysis of biological networks play crucial roles in understanding living systems. Biological networks include diverse types, from gene regulatory networks and protein–protein interactions to metabolic networks. Metabolic networks include substrates, products, and enzymes, which are regulated by allosteric mechanisms and gene expression. However, the analysis of these diverse omics types is challenging due to the diversity of databases and the complexity of network analysis. Results We developed iTraNet, a web application that visualizes and analyzes trans-omics networks involving four types of networks: gene regulatory networks; protein–protein interactions; metabolic networks; and metabolite exchange networks. Using iTraNet, we found that in wild-type mice, hub molecules within the network tended to respond to glucose administration, whereas in ob/ob mice, this tendency disappeared. With its ability to facilitate network analysis, we anticipate that iTraNet will help researchers gain insights into living systems. Availability iTraNet is available at https://itranet.streamlit.app/. Supplementary information Supplementary data are available at Bioinformatics Advances online.

Bibliometric Analysis of Pyrimidine Compounds with Anti-cancer Activity: Research Trends from 2015 to 2023

Cancer remains one of the most pervasive diseases in the world, globally, leading to millions of fatalities annually. Currently, numerous anti-cancer treatments are available to address the various types of cancer. Pyrimidine, a class of heterocyclic nitrogenous compounds, holds substantial promise in anti-cancer drug development due to its structural similarity to the nucleotide base pairs found in DNA and RNA. This work aimed to conduct a bibliometric analysis of studies on pyrimidine compounds with anti-cancer characteristics. Using the Scopus database, we examined literature published between 2015 and 2023, explicitly concentrating on pyrimidine derivatives as potential anti-cancer agents. Data analysis such as network analysis, co-occurrence, and visualization were conducted utilizing VOSviewer 1.6.13. Nine hundred twenty-two papers altogether, including reviews and original research, discussing the anti-cancer activity of pyrimidine compounds were identified within the specified timeframe up to January 10, 2023. Among these, 922 journal articles were selected for further analysis. Results show that Egypt led in research productivity with 267 articles (28.96%), followed by India with 234 articles (25.38%), and China with 163 articles (17.68%). Cairo University in Egypt ranked first in institutional productivity with 9 articles (0.98%), while the journal Bioorganic Chemistry was the most prolific, publishing 62 articles (6.72%) on pyrimidine compounds with anti-cancer activity. The notable increase in publications on the anti-cancer activity of pyrimidine compounds in recent years underscores the significant interest they have garnered from both pharmaceutical and academic researchers. The data presented in this study will serve as a foundational reference for future comparative studies in this area.

Bibliometric Assessment of Data-Driven Marketing Research Trends in the Last Two Decades

This study presents a bibliometric analysis of data-driven marketing research trends over the last two decades, with a focus on its intersection with innovation, decision-making, and related topics. Using VOSviewer for network visualization, we analyze co-authorship, keyword co-occurrence, publication frequency, and country collaboration to uncover key themes and research developments. The findings indicate a significant rise in data-driven marketing research, particularly from 2015 onwards, driven by advancements in big data, machine learning, and artificial intelligence. Co-authorship networks reveal strong interdisciplinary collaboration, while keyword co-occurrence maps highlight the growing role of innovation, decision-making, and machine learning in data-driven marketing. Additionally, country collaboration networks show the United States, China, the United Kingdom, and India as central contributors to global research. The keyword density heatmap emphasizes the increasing focus on data-driven innovation and product development. These insights offer valuable implications for academics and practitioners seeking to understand and apply data-driven marketing in a rapidly evolving digital landscape.

Gastrointestinal Impact of Flatulence-Causing Compounds in Foods: A Scientometric Study

Flatulence, or the passing of gas, can be caused by various factors, including the consumption of foods that contain hydrogen sulfide. When these foods are digested, they can release hydrogen sulfide gas, accumulating in the intestines and releasing flatulence. The present study aimed to give a scientometric overview of publications on flatulence regarding productive sources/journals, top active authors, foremost affiliations, prominent countries, and most used author’s keywords. In all, 4752 articles were downloaded from the Web of Science [WoS] database [2007-2021], consisting of journal articles, review articles, and the English language. Data analysis and network visualization maps were created using Micro Soft Excel, Biblioshiny, and VOS viewer. The results indicate that the most productive author was Germain DP contributed 53 papers with the highest received 4026 citations. The topmost journal contributions were Plos One with number 113. Findings revealed that the top two institutions were from Canada. It was revealed that the United States, and China were the second-ranked in document contributions related to flatulence research. Articles produced by single-country publications had a higher number of papers compared with papers produced by multiple-country publications. Clinical research is a crucial aspect of healthcare as it helps determine the safety and effectiveness of new medical interventions, which can be used to improve patient outcomes related to flatulence research.

Graph Node Scoring for the Analysis and Visualisation of Mobility Networks and Data

Graph Node Scoring for the Analysis and Visualisation of Mobility Networks and Data

Mechanisms of Action of the Herba Salviae Chinensis-Fructus Akebiae Pair in the Treatment of Non-small Cell Lung Cancer based on a Network Pharmacology Study

Objective: To study the active ingredients and mechanism of action of "Herba Salviae Chinensis-Fructus Akebiae" drug pair in the treatment of non-small cell lung cancer (NSCLC) by using network pharmacology to provide theoretical basis for clinical application. Methods: The TCMSP (Traditional Chinese Medicine Systematic Pharmacology Database and Analysis Platform) was used to obtain the active ingredients and targets of "Herba Salviae Chinensis-Fructus Akebiae", and the results were analyzed by the Genecard (https://genecard, org/) database, the Online Mendelian Inheritance Network (OMI), the Genecard database, the Genecard database, and the Online Mendelian Inheritance Network. We searched the Genecard (https://genecard, org/) database and the Online Mendelian Inheritance in Man (OMIM) database (http://omim. org/) for non-small cell lung cancer (NSCLC) disease targets by selecting "NSCLC" as a keyword, and then obtained the results of the "Herba Salviae Chinensis-Fructus Akebiae" drug pair by using venn. We used venn to obtain the intersecting targets of the drug pair "Herba Salviae Chinensis-Fructus Akebiae" and NSCLC, and then used the STRING database and Cytoscape to construct a common target visualization network diagram. The gene (GO) enrichment analysis and KEGG enrichment analysis were realized with the help of metascape database and Microbiology platform. Results: Five active ingredients of Ishiminokan-Precipitant were obtained, and 3695 non-small cell lung cancer targets and 123 common targets were obtained. GO analysis showed that the process of GO enrichment was mainly related to the regulation of responses to inorganic substances, transcriptional regulatory complexes, cytokine receptor binding, etc. KEGG enrichment showed that the process of KEGG enrichment was mainly through Pathways in Cancer, ILRT, and cytokine receptor binding. KEGG enrichment showed that KEGG mainly exerted anti-cancer effects through pathways in cancer and IL-17 signaling pathway. Conclusion: Using the method of network pharmacology, it is proved that the drug pair "Herba Salviae Chinensis-Fructus Akebiae" can exert therapeutic effects on NSCLC through multi-components, multi-targets, and multi-pathways, and provides the theoretical basis for the clinical application.

Human rights and social justice in Quranic contexts: a global trend

Scholarly interest in the study of social justice and human rights in Quranic contexts has increased in light of global conversations about ethical governance, equality, and justice. To fully comprehend how Islamic texts contribute to current human rights discourses, this study aims to present a bibliometric analysis of key trends, authors, and themes in the literature surrounding these problems. Using R/R-Studio, Vosviewer, Microsoft Excel, and a Boolean search on Scopus, data from 2019 to 2024 is analysed to identify important trends, authors, affiliations, and thematic developments within these interconnected disciplines. The results show a wide range of research interests and substantial publication activity with noteworthy contributions from different nations and institutions. Network visualisations highlight the transdisciplinary nature of the discourse by illuminating the relationships and co-occurrences of important terms. This study offers important insights into the development of scholarly research on these important subjects, laying the groundwork for further research and educating practitioners and politicians on the relationship between social justice, legal doctrine, and religious texts.