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HIVE-4-MAT: Advancing the Ontology Infrastructure for Materials Science

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 Added by Jane Greenberg
 Publication date 2021
and research's language is English




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Introduces HIVE-4-MAT - Helping Interdisciplinary Vocabulary Engineering for Materials Science, an automatic linked data ontology application. Covers contextual background for materials science, shared ontology infrastructures, and reviews the knowledge extraction and indexing process. HIVE-4-MATs vocabulary browsing, term search and selection, and knowledge extraction and indexing are reviewed, and plans to integrate named entity recognition. Conclusion highlights next steps with relation extraction to support better ontologies.



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81 - Wout S. Lamers 2021
Disagreement is essential to scientific progress. However, the extent of disagreement in science, its evolution over time, and the fields in which it happens, remains largely unknown. Leveraging a massive collection of scientific texts, we develop a cue-phrase based approach to identify instances of disagreement citations across more than four million scientific articles. Using this method, we construct an indicator of disagreement across scientific fields over the 2000-2015 period. In contrast with black-box text classification methods, our framework is transparent and easily interpretable. We reveal a disciplinary spectrum of disagreement, with higher disagreement in the social sciences and lower disagreement in physics and mathematics. However, detailed disciplinary analysis demonstrates heterogeneity across sub-fields, revealing the importance of local disciplinary cultures and epistemic characteristics of disagreement. Paper-level analysis reveals notable episodes of disagreement in science, and illustrates how methodological artefacts can confound analyses of scientific texts. These findings contribute to a broader understanding of disagreement and establish a foundation for future research to understanding key processes underlying scientific progress.
Recent reproducibility case studies have raised concerns showing that much of the deposited research has not been reproducible. One of their conclusions was that the way data repositories store research data and code cannot fully facilitate reproducibility due to the absence of a runtime environment needed for the code execution. New specialized reproducibility tools provide cloud-based computational environments for code encapsulation, thus enabling research portability and reproducibility. However, they do not often enable research discoverability, standardized data citation, or long-term archival like data repositories do. This paper addresses the shortcomings of data repositories and reproducibility tools and how they could be overcome to improve the current lack of computational reproducibility in published and archived research outputs.
In the materials design domain, much of the data from materials calculations are stored in different heterogeneous databases. Materials databases usually have different data models. Therefore, the users have to face the challenges to find the data from adequate sources and integrate data from multiple sources. Ontologies and ontology-based techniques can address such problems as the formal representation of domain knowledge can make data more available and interoperable among different systems. In this paper, we introduce the Materials Design Ontology (MDO), which defines concepts and relations to cover knowledge in the field of materials design. MDO is designed using domain knowledge in materials science (especially in solid-state physics), and is guided by the data from several databases in the materials design field. We show the application of the MDO to materials data retrieved from well-known materials databases.
110 - Heng Zhang , Chengzhi Zhang 2021
Research on the construction of traditional information science methodology taxonomy is mostly conducted manually. From the limited corpus, researchers have attempted to summarize some of the research methodology entities into several abstract levels (generally three levels); however, they have been unable to provide a more granular hierarchy. Moreover, updating the methodology taxonomy is traditionally a slow process. In this study, we collected full-text academic papers related to information science. First, we constructed a basic methodology taxonomy with three levels by manual annotation. Then, the word vectors of the research methodology entities were trained using the full-text data. Accordingly, the research methodology entities were clustered and the basic methodology taxonomy was expanded using the clustering results to obtain a methodology taxonomy with more levels. This study provides new concepts for constructing a methodology taxonomy of information science. The proposed methodology taxonomy is semi-automated; it is more detailed than conventional schemes and the speed of taxonomy renewal has been enhanced.
Provenance is a critical ingredient for establishing trust of published scientific content. This is true whether we are considering a data set, a computational workflow, a peer-reviewed publication or a simple scientific claim with supportive evidence. Existing vocabularies such as DC Terms and the W3C PROV-O are domain-independent and general-purpose and they allow and encourage for extensions to cover more specific needs. We identify the specific need for identifying or distinguishing between the various roles assumed by agents manipulating digital artifacts, such as author, contributor and curator. We present the Provenance, Authoring and Versioning ontology (PAV): a lightweight ontology for capturing just enough descriptions essential for tracking the provenance, authoring and versioning of web resources. We argue that such descriptions are essential for digital scientific content. PAV distinguishes between contributors, authors and curators of content and creators of representations in addition to the provenance of originating resources that have been accessed, transformed and consumed. We explore five projects (and communities) that have adopted PAV illustrating their usage through concrete examples. Moreover, we present mappings that show how PAV extends the PROV-O ontology to support broader interoperability. The authors strived to keep PAV lightweight and compact by including only those terms that have demonstrated to be pragmatically useful in existing applications, and by recommending terms from existing ontologies when plausible. We analyze and compare PAV with related approaches, namely Provenance Vocabulary, DC Terms and BIBFRAME. We identify similarities and analyze their differences with PAV, outlining strengths and weaknesses of our proposed model. We specify SKOS mappings that align PAV with DC Terms.
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