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6 materials found

Operations: Query and retrieval 


Training Primer (RDF and SPARQL)

This training provides a first introduction to RDF and SPARQL.

Scientific topics: Ontology and terminology, Medical informatics, FAIR data, Data management, Computer science

Operations: Data retrieval, Data handling, Database search, Query and retrieval

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, Triplestore, Ontology

Resource type: Video, Training materials, E-learning

Training Primer (RDF and SPARQL) https://tess.elixir-europe.org/materials/training-primer-rdf-and-sparql This training provides a first introduction to RDF and SPARQL. Sabine Österle Ontology and terminology Medical informatics FAIR data Data management Computer science Clinical data, SPARQL, Query data, RDF, Knowledge graph, Triplestore, Ontology Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
RDF Schema and Data Visualization

This training module will provide researchers with an introduction on how to explore and visualize the SPHN ontology and mock data.

Scientific topics: Data visualisation, Medical informatics, FAIR data, Data management, Computer science

Operations: Ontology visualisation, Visualisation, Data retrieval, Data handling, Query and retrieval

Keywords: Clinical data, SPARQL, Data visualization, RDF, Knowledge graph, GraphDB, Mock data

Resource type: Video, Training materials, Mock data, E-learning

RDF Schema and Data Visualization https://tess.elixir-europe.org/materials/rdf-schema-and-data-visualization This training module will provide researchers with an introduction on how to explore and visualize the SPHN ontology and mock data. Vasundra Touré Sabine Österle Data visualisation Medical informatics FAIR data Data management Computer science Clinical data, SPARQL, Data visualization, RDF, Knowledge graph, GraphDB, Mock data Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
How to use Python and R with RDF Data

This training module will provide researchers with an introduction on how use R and Python in combination with SPARQL to query RDF data.

Scientific topics: Medical informatics, FAIR data, Data management, Computer science

Operations: Data retrieval, Data handling, Query and retrieval

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, Python, R, GraphDB

Resource type: Video, Training materials, Mock data, E-learning

How to use Python and R with RDF Data https://tess.elixir-europe.org/materials/how-to-use-python-and-r-with-rdf-data This training module will provide researchers with an introduction on how use R and Python in combination with SPARQL to query RDF data. Sabine Österle Vasundra Touré Medical informatics FAIR data Data management Computer science Clinical data, SPARQL, Query data, RDF, Knowledge graph, Python, R, GraphDB Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
Querying Data with SPARQL

This training module will provide researcher with an introduction to SPARQL queries for health-related data.

Scientific topics: Computer science, Data management, FAIR data, Medical informatics

Operations: Query and retrieval, Database search, Data handling, Data retrieval

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, SNOMED CT, LOINC

Resource type: Video, Training materials with mock data, E-learning

Querying Data with SPARQL https://tess.elixir-europe.org/materials/querying-data-with-sparql This training module will provide researcher with an introduction to SPARQL queries for health-related data. Philip Krauss Sabine Österle Computer science Data management FAIR data Medical informatics Clinical data, SPARQL, Query data, RDF, Knowledge graph, SNOMED CT, LOINC Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
SPARQLing Biology: a beginners course

Course given at BioSB 2019 for biologists about SPARQL.

Scientific topics: Biology

Operations: Query and retrieval

Keywords: Sparql queries, Sparql syntax

Resource type: Tutorial

SPARQLing Biology: a beginners course https://tess.elixir-europe.org/materials/sparqling-biology-a-beginners-course Course given at BioSB 2019 for biologists about SPARQL. Biology Sparql queries, Sparql syntax Biologists Chemists
Datanator tutorial

Datanator is an integrated database of genomic and biochemical data designed to help investigators find data about specific molecules and reactions in specific organisms and specific environments for meta-analyses and mechanistic models. Datanator currently includes metabolite concentrations, RNA...

Scientific topics: Omics, Bioinformatics, Systems biology, Cell biology, Molecular biology

Operations: Filtering, Query and retrieval

Keywords: genomics, Proteomics, transcriptomics, Metabolomics, reaction kinetics, Kinetic modeling, meta analysis

Resource type: Tutorial

Datanator tutorial https://tess.elixir-europe.org/materials/datanator-tutorial Datanator is an integrated database of genomic and biochemical data designed to help investigators find data about specific molecules and reactions in specific organisms and specific environments for meta-analyses and mechanistic models. Datanator currently includes metabolite concentrations, RNA modifications and half-lives, protein abundances and modifications, and reaction kinetics integrated from several databases and numerous publications. The Datanator website and REST API provide tools for extracting clouds of data about specific molecules and reactions in specific organisms and specific environments, as well as data about similar molecules and reactions in taxonomically similar organisms. This tutorial provides a brief introduction to the Datanator database and web application. The tutorial illustrates how to search the Datanator database and obtain and refine clouds of data about specific metabolites, RNA, proteins, and reactions of interest. Omics Bioinformatics Systems biology Cell biology Molecular biology genomics, Proteomics, transcriptomics, Metabolomics, reaction kinetics, Kinetic modeling, meta analysis mololecular cell biologists systems biologists bioinformaticians Computational biologists modelers