Short description 

The representation of microbiological data in the form of an open Knowledge Graph provides search possibilities with the query language SPARQL and can enable the enrichment of data by linking it easily to other resources. After agreeing on a schema to fit the nature of your data, MicrobioKGs serves as a blueprint on how to store your information in a findable, accessible, interoperable, and reusable way.
The Use Case MicrobioKGs aims at the semantic representation of heterogeneous and partially neglected data/ metadata from microbiology to enable powerful search and query opportunities. These will be showcased on three specific examples:
(1) Bacterial sRNAs and their regulatory network in different species,
(2) Metadata of numerous aquatic microbiome samples,
(3) Information of outbreaks of Q fever, an infectious disease caused by the bacterial pathogen Coxiella burnetii

Graphical abstract

Graphical abstract “Use Case MicrobioKGs” by Vanessa Scharf is coming soon.

How you can contribute  

You are a …

• microbiologist who generates or works with microbiological data, and would like to make it accessible following the FAIR principles:
  Learn to create items, define properties, and connect your data through semantic relationships

Planned output 

Research output

• Working towards connecting microbiological data with domain-specific, yet currently not linked data
• Analyze linked data and gain potential insights by identifiying new correlations and relationships, e.g., by combining datasets with geolocation and sample types to track outbreak routes

Infrastructure output

• Using Wikibase, which offers an easy-to-use web interface as well as an API, enables research communities to maintain and curate their data
• Creating knowledge bases for future analysis in a cost-efficient manner
• Pilot knowledge graphs for different domains in microbiology

Training

• Demonstrate how users without a strong computational background can use Wikibase for curating their own datasets in a knowledge graph