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Ontologies4Spreadsheets: OntoMaton
Ontologies4Spreadsheets: OntoMaton
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Similar to SWATE, Ontomaton is an extension to Google Spreadsheets, offering Ontology Term lookup. Ontomaton was developed by Team ISA. This presentation quickly shows that Ontomaton exists, and what it can do.
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URL: https://doi.org/10.5281/zenodo.10254922Communities:Target Groups:
  • Data Steward
Proficiency Levels:
  • Advanced Beginner

Ontologies4Chem: the landscape of ontologies in chemistry
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Ontologies4Chem: the landscape of ontologies in chemistryFor a long time, databases such as CAS, Reaxys, PubChem or ChemSpider mostly rely on unique numerical identifiers or chemical structure identifiers like InChI, SMILES or others to link data across heterogeneous data sources. The retrospective processing of information and fragmented data from text publications to maintain these databases is a cumbersome process. Ontologies are a holistic approach to semantically describe data, information and knowledge of a domain. They provide terms, relations and logic to semantically annotate and link data building knowledge graphs. The application of standard taxonomies and vocabularies from the very beginning of data generation and along research workflows in electronic lab notebooks (ELNs), software tools, and their final publication in data repositories create FAIR data straightforwardly. Thus a proper semantic description of an investigation and the why, how, where, when, and by whom data was produced in conjunction with the description and representation of research data is a natural outcome in contrast to the retrospective processing of research publications as we know it. In this work we provide an overview of ontologies in chemistry suitable to represent concepts of research and research data. These ontologies are evaluated against several criteria derived from the FAIR data principles and their possible application in the digitisation of research data management workflows.
Learning Resource Type
Article
File Format
PDF
Languages
English
Media Type
Text
Publication Date
2022-03-24
License
CCBYNCND
Size
1.1 MB
Authors
Keywords
#terminology#research data#ontology#FAIR data#Cheminformatics#linked data
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NFDI4C* Workshop on synergy & cooperation
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NFDI4C* Workshop on synergy & cooperationA short presentationthat was held in the breakout session "ontologies & metadata" of the NFDI4Chem & NFDI4Cat joint workshop.
File Format
PDF
Languages
English
Media Type
Presentation
Publication Date
2023-05-05
License
CCBY
Size
4.8 MB
Authors
Keywords
#FAIR data#RDM#Metadaten#metadata#Forschungsdatenmanagement#research data management#repository#FAIR-Prinzipien#ELN#FDM#FAIR principles#FAIRe Daten#Infrastruktur#electronic lab notebook#Chemie#ELB#Elektronisches Laborbuch#Forschungsdateninfrastruktur#HeFDI Data Talk#Repositorium#chemistry#infrastructure#research data infrastructure
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Ontologies4SchemaOrg
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Ontologies4SchemaOrgThe domain-specific JSON-LD based metadata in Schema.org and Bioschemas.org allows to provide property values not only as free-text or URL, but also as a DefinedTerm from a DefinedTermSet. Several examples exist where e.g., terms from OBO Ontologies are used, automatic FAIR evaluators honor their use, and validators start to check that valid terms are used. This presentation gives examples, suggests a discussion of (documented) best practices, and calls for (more) implementations.
File Format
PDF
Languages
English
Media Type
Presentation
Publication Date
2023-12-04
License
CCBY
Size
4.1 MB
Authors
Keywords
#metadata#Ontologies#Bioschemas#SchemaOrg
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Publication Standards in Chemistry and Beyond
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Publication Standards in Chemistry and BeyondThis poster aims to outline NFDI4Chem’s efforts on Publication Standards, while fostering exchange on similar work beyond the realm of chemistry. We present results of our most recent pilot with a scientific publisher connected to past but ongoing work involving (1) the Editors4Chem Workshop, (2) a wide-scale study on how journals’ author guidelines support FAIR and open sciences practices, and (3) the work in pilot projects to enhance the appreciation of data publications and to support data publishing by researchers through the publishers’ manuscript submission processes. This pilot aims to improve how journals link articles to their respective datasets at a technical (metadata) level (F2, I3). Based on these aspects, we also aim to initiate cross-consortia collaborations with our poster at CoRDI to identify opportunities for cross-disciplinary knowledge transfer on domain-independent aspects of publication standards.
Learning Resource Type
Poster
File Format
PDF
Languages
English
Publication Date
2023-09-20
License
CCBY
Size
6 MB
Authors
Keywords
#metadata#research data management#NFDI4Chem#publication standards#standards
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Schema.org as a Lightweight Harmonization Approach for NFDI
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Schema.org as a Lightweight Harmonization Approach for NFDISchema.org is a controlled vocabulary that makes it easier for web pages to describe their actual content in a semantic, structured and machine-processable way. It is recognized by major search engines and data aggregators, making it easier for researchers to expose metadata describing their research outcomes. Here we present how Schema.org is used (or planned to be used) by some NFDI consortia, becoming a lightweight approach to harmonize digital objects coming from different sources so they can be connected to each other in a meaningful way.
File Format
PDF
Languages
English
Media Type
Presentation
Publication Date
2023-09-13
License
CCBY
Size
7.3 MB
Authors
Keywords
#Bioschemas#Metadata#Harvesting#JSON-LD#Markup#OAI-PMH#Structured#schema.org
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SchemaOrg and JSON-LD for Rich Metadata Integration in the NFDI
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SchemaOrg and JSON-LD for Rich Metadata Integration in the NFDIRich Metadata are of utmost importance to improve the Findability and Reusability of research data. In this NFDI-Infratalk, we showcase how datasets can be described with domain specific metadata using SchemaOrg as JSON-LD, using defined terms from terminology services, and how everything can be indexed in searchable resources.
File Format
PDF
Languages
English
Media Type
Presentation
Publication Date
2024-03-18
License
CCBY
Size
8.6 MB
Authors
Keywords
No keywords
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