SciData - A Scientific Data Model

SciData - A Scientific Data Model GitHub Repo Research Paper

SciData is a data model for scientific data (JSON-LD implementation shown right) that provides a ontologically defined framework for organizing both the data and metadata from scientific experiments, calculations, and theories. Data from any science discipline can be contained in the framework using existing semantic definition of data elements (via ontologies) Open science, open data, open code, open concept - it's all about the data!

SciData JSON-LD Context Documents

Importing context documents in JSON-LD files allows their use in multiple documents. This is the same way that XML (and JSON) schema work except the context is not defining rules of what the content of the JSON values can be, rather the assignment of semantic meaning to the values. A list of example files is here and includes data from PubChem, the Dortmund Data Bank (DDB), and a Crystallography Information Framework (CIF) file.

SciData Framework JSON-LD Contexts

scidata - Top level JSON-LD context for each scidata document scidata_methodology - Methodology aspects scidata_system - System facets scidata_dataset - Dataset (includes datagroup, dataseries, datapoint) scidata_parameter - Generic parameter or array of parameter values scidata_value - A value (numeric or text) or array of values scidata_unit - Representation or referencing of scientific units

Example JSON-LD Contexts for 'Aspects' of Methodology

For Experimental Data
- scidata_measurement - object for measurement metadata
- scidata_procedure - object for procedural metadata
- scidata_resource - object for laboratory resource metadata

For Computational Data
- scidata_basisset - object for basis set metadata (example)
- scidata_calculation - object for calculation metadata (example)
- scidata_software - object for computational software metadata (example)

Example JSON-LD Contexts for 'Facets' of the System

For Experimental Data
- scidata_chemical - object for (manufactured) chemical metadata
- scidata_compound - object for compound metadata
- scidata_condition - object for (experimental) conditions metadata
- scidata_material - object for materials metadata
- scidata_organism - object for organism metadata
- scidata_system - object for chemical system (mixture) metadata

For Computational Data
- scidata_computer - object for computer processing metadata
- scidata_molsystem - object for molecular system metadata

Stuart Chalk
Department of Chemistry
University of North Florida
Phone: 1-904-620-1938
Email: schalk@unf.edu
ORCID: 0000-0002-0703-7776