tutorial arrow
×
Create your own tool library
Bookmark tools and put favorites into folders to find them easily.

SBGN TO Neo4j STON

Online

A graph-based tool to extend the existing infrastructure for storing and exploring biological pathways in Systems Biology Graphical Notation-Markup Language (SBGN-ML) format. STON can transform SBGN maps into a graph representation, thereby enabling: (i) efficient management and querying of networks, (ii) identification of subgraphs in networks, (iii) merging of existing pathways into larger networks. Ultimately, STON imports and translates metabolic signalling and gene regulatory pathways represented in the SBGN into a graph-oriented format compatible with the Neo4J graph database.

User report

tutorial arrow
×
Vote up tools and offer feedback
Give value to tools and make your expertise visible

0 user reviews

0 user reviews

No review has been posted.

STON forum

tutorial arrow
×
Communicate with other users
Participate in the forum to get support for using tools. Ask questions about technical specifications.

No open topic.

STON versioning

tutorial arrow
×
Upload and version your source code
Get a DOI for each update to improve tool traceability. Archive your releases so the community can easily visualize progress on your work.

No versioning.

STON classification

STON specifications

Software type:
Framework/Library
Restrictions to use:
None
Programming languages:
Java
Computer skills:
Medium
Stability:
Stable
Interface:
Graphical user interface
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 2.0
Version:
1.2
Requirements:
Neo4J community edition, LibSBGN milestone 2
Maintained:
Yes

STON support

Documentation

Maintainer

  • Vasundra Touré <>

Credits

tutorial arrow
×
Promote your skills
Define all the tasks you managed and assign your profile the appropriate badges. Become an active member.

Publications

Institution(s)

Department of Systems Biology and Bioinformatics, University of Rostock, Rostock, Germany; European Institute for Systems Biology and Medicine (EISBM), CIRI UMR 5308, CNRS-ENS-UCBL-INSERM, Université de Lyon, Lyon, France; Scientific Databases and Visualization, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany; Department of Business Information Systems, University of Rostock, Rostock, Germany

Funding source(s)

This work was supported by the Innovative Medicines Initiative Joint Undertaking under grant agreement number IMI 115446, the European Union’s Seventh Framework Programme (FP7/2007–2013), the EFPIA companies’, the BMBF e:Bio SBGN-ED+ project (FKZ 031 6181), the German Federal Ministry of Education and Research (BMBF) via grant number FKZ 031 A540A.

Link to literature

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.