Data Science Journal最新文献

{"title":"Data Management for PalMod-II – A FAIR-Based Strategy for Data Handling in Large Climate Modeling Projects","authors":"Swati Gehlot, Karsten Peters-von Gehlen, Andrea Lammert, Hannes Thiemann","doi":"10.5334/dsj-2023-034","DOIUrl":"https://doi.org/10.5334/dsj-2023-034","url":null,"abstract":"PalMod-II was a multi-institutional research project in Germany focusing on enabling and performing global numerical climate simulations with state-of-theart coupled Earth System Models spanning a full glacial cycle from 130 000 years in the past to the present and beyond. The main project goal was the dataset resulting from these simulations and making it available for reuse by the climate science community in-line with the FAIR data principles. In this paper, we present the research data management (RDM) approach developed and employed in PalMod-II to progress towards that project goal. The RDM approach was implemented by RDM professionals specifically funded by PalMod-II, which made it possible to provide RDM services tailored specifically to the project needs. The compilation and maintenance of a project-wide data management plan (DMP) has proven essential for keeping the project on track and serving as a central focal point of any data-related aspects. These include the specification of data responsible scientists, allocation of storage and computaional resources on a high-performance computing system, documentation of simulation output requirements, definition of data standardisation, and publication workflows in-line with the FAIR data principles. Since the RDM approach executed in PalMod-II was first-of-its-kind for all project partners, exhaustive communication at par with the scientists was required to create trust and a collaborative atmosphere within the project. Finally, the RDM approach implemented in PalMod-II facilitated the publication of a flagship dataset for global reuse, and will also be implemented in the follow-up project: PalMod-III.","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":"80 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135360692","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Data Management Plans for the Photon and Neutron Communities","authors":"Marjolaine Bodin, Fredrik Bolmsten, Petra Aulin, T. Ivănoaica, A. Olivo, J. Malka, K. Wrona, Andy Götz","doi":"10.5334/dsj-2023-030","DOIUrl":"https://doi.org/10.5334/dsj-2023-030","url":null,"abstract":"","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":"22 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71068311","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Development of a Job Advertisement Analysis for Assessing Data Science Competencies","authors":"Jan Vogt, Thilo Voigt, Annika Nowak, Jan M. Pawlowski","doi":"10.5334/dsj-2023-033","DOIUrl":"https://doi.org/10.5334/dsj-2023-033","url":null,"abstract":"","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":"22 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71068443","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A Notion of Feature Importance by Decorrelation and Detection of Trends by Random Forest Regression","authors":"Yannick Gerstorfer, Max Hahn-Klimroth, Lena Krieg","doi":"10.5334/dsj-2023-042","DOIUrl":"https://doi.org/10.5334/dsj-2023-042","url":null,"abstract":"In many studies, we want to determine the influence of certain features on a dependent variable. More specifically, we are interested in the strength of the influence – i.e., is the feature relevant? And, if so, how the feature influences the dependent variable. Recently, data-driven approaches such as random forest regression have found their way into applications (Boulesteix et al. 2012). These models allow researchers to directly derive measures of feature importance, which are a natural indicator of the strength of the influence. For the relevant features, the correlation or rank correlation between the feature and the dependent variable has typically been used to determine the nature of the influence. More recent methods, some of which can also measure interactions between features, are based on a modeling approach. In particular, when machine learning models are used, SHAP scores are a recent and prominent method to determine these trends (Lundberg et al. 2017). In this paper, we introduce a novel notion of feature importance based on the well-studied Gram-Schmidt decorrelation method. Furthermore, we propose two estimators for identifying trends in the data using random forest regression, the so-called absolute and relative traversal rate. We empirically compare the properties of our estimators with those of well-established estimators on a variety of synthetic and real-world datasets.","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":"12 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135784269","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Ontology-Driven Semantic Enrichment Framework for Open Data Value Creation","authors":"Oarabile Sebubi, Irina Zlotnikova, Hlomani Hlomani","doi":"10.5334/dsj-2023-040","DOIUrl":"https://doi.org/10.5334/dsj-2023-040","url":null,"abstract":"","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":"81 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"134883791","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A Framework for Data-Driven Solutions with COVID-19 Illustrations","authors":"Kassim S. Mwitondi, Raed A. Said","doi":"10.5334/dsj-2021-036","DOIUrl":"https://doi.org/10.5334/dsj-2021-036","url":null,"abstract":"Data–driven solutions have long been keenly sought after as tools for driving the world’s fast changing business environment, with business leaders seeking to enhance decision making processes within their organisations. In the current era of Big Data, applications of data tools in addressing global, regional and national challenges have steadily grown in almost all fields across the globe. However, working in silos has continued to impede research progress, creating knowledge gaps and challenges across geographical borders, legislations, sectors and fields. There are many examples of the challenges the world faces in tackling global issues, including the complex interactions of the 17 Sustainable Development Goals (SDG) and the spatio–temporal variations of the impact of the on-going COVID–19 pandemic. Both challenges can be seen as non–orthogonal, strongly correlated and requiring an interdisciplinary approach to address. We present a generic framework for filling such gaps, based on two data-driven algorithms that combine data, machine learning and interdisciplinarity to bridge societal knowledge gaps. The novelty of the algorithms derives from their robust built–in mechanics for handling data randomness. Animation applications on structured COVID–19 related data obtained from the European Centre for Disease Prevention and Control (ECDC) and the UK Office of National Statistics exhibit great potentials for decision-support systems. Predictive findings are based on unstructured data–a large COVID–19 X–Ray data, 3181 image files, obtained from GitHub and Kaggle. Our results exhibit consistent performance across samples, resonating with cross-disciplinary discussions on novel paths for data-driven interdisciplinary research. © 2021, Ubiquity Press. All rights reserved.","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47906193","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Application Profile for Machine-Actionable Data Management Plans","authors":"Tomasz Miksa, P. Walk, Peter Neish, Simon Oblasser, Hollydawn Murray, Tom Renner, Marie-Christine Jacquemot-Perbal, João Cardoso, T. Kvamme, M. Praetzellis, M. Suchánek, Rob W.W. Hooft, Benjamin Faure, H. Moa, A. Hasan, Sarah Jones","doi":"10.5334/dsj-2021-032","DOIUrl":"https://doi.org/10.5334/dsj-2021-032","url":null,"abstract":"This paper presents the application profile for machine-actionable data management plans that allows information from traditional data management plans to be expressed in a machine-actionable way. We describe the methodology and research conducted to define the application profile. We also discuss design decisions made during its development and present systems which have adopted it. The application profile was developed in an open and consensus-driven manner within the DMP Common Standards Working Group of the Research Data Alliance and is its official recommendation. TOMASZ MIKSA PAUL WALK PETER NEISH SIMON OBLASSER HOLLYDAWN MURRAY TOM RENNER MARIE-CHRISTINE JACQUEMOT-PERBAL JOÃO CARDOSO TROND KVAMME MARIA PRAETZELLIS MAREK SUCHÁNEK ROB HOOFT BENJAMIN FAURE HANNE MOA ADIL HASAN SARAH JONES","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-10-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"49529013","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Do I-PASS for FAIR? Measuring the FAIR-ness of Research Organizations","authors":"J. Ringersma, M. Miedema","doi":"10.5334/dsj-2021-030","DOIUrl":"https://doi.org/10.5334/dsj-2021-030","url":null,"abstract":"","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"43886427","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Open Access and Data Sharing of Nucleotide Sequence Data","authors":"Masanori Arita","doi":"10.5334/dsj-2021-028","DOIUrl":"https://doi.org/10.5334/dsj-2021-028","url":null,"abstract":"Open access, free access, and the public domain are different concepts. The International Nucleotide Sequence Database Collaboration (INSDC) permanently guarantees free and unrestricted access to nucleotide sequence data for all researchers, irrespective of nationality or affiliation. However, recent virus information is primarily distributed via the restricted-access repository known as the Global Initiative on Sharing Avian Flu Data (GISAID) supported by the World Health Organization. As compensation for the restriction, GISAID needs to meet its initial goal of benefit-sharing among countries and to curb ongoing vaccine diplomacy campaigns.","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47342634","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Research Data Management Challenges in Citizen Science Projects and Recommendations for Library Support Services. A Scoping Review and Case Study","authors":"J. S. Hansen, Signe Gadegaard, Karsten Kryger Hansen, Asger Væring Larsen, S. Møller, Gertrud Stougård Thomsen, Katrine Flindt Holmstrand","doi":"10.5334/dsj-2021-025","DOIUrl":"https://doi.org/10.5334/dsj-2021-025","url":null,"abstract":"Citizen science (CS) projects are part of a new era of data aggregation and harmonisation that facilitates interconnections between different datasets. Increasing the value and reuse of CS data has received growing attention with the appearance of the FAIR principles and systematic research data management (RDM) practises, which are often promoted by university libraries. However, RDM initiatives in CS appear diversified and if CS have special needs in terms of RDM is unclear. Therefore, the aim of this article is firstly to identify RDM challenges for CS projects and secondly, to discuss how university libraries may support any such challenges. A scoping review and a case study of Danish CS projects were performed to identify RDM challenges. 48 articles were selected for data extraction. Four academic project leaders were interviewed about RDM practices in their CS projects. Challenges and recommendations identified in the review and case study are often not specific for CS. However, finding CS data, engaging specific populations, attributing volunteers and handling sensitive data including health data are some of the challenges requiring special attention by CS project managers. Scientific requirements or national practices do not always encompass the nature of CS projects. Based on the identified challenges, it is recommended that university libraries focus their services on 1) identifying legal and ethical issues that the project managers should be aware of in their projects, 2) elaborating these issues in a Terms of Participation that also specifies data handling and sharing to the citizen scientist, and 3) motivating the project manager to good data handling practises. Adhering to the FAIR principles and good RDM practices in CS projects will continuously secure contextualisation and data quality. High data quality increases the value and reuse of the data and, therefore, the empowerment of the citizen scientists.","PeriodicalId":35375,"journal":{"name":"Data Science Journal","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-08-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"41536545","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}