Ontology tool for NMR-STAR data
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dic2xsd
extlibs
queries
schema
scripts
xsd2owl
xsd2xml2rdf
CHANGELOG
INSTALL
LICENSE
NMR-STAR.dic
NOTICE
README.md
VERSION
ask_graph_existance.sh
bmr2nt.sh
bmr2rdf.sh
bmr2virtuoso.sh
bmrchk_rdf.sh
bmrzip_rdf.sh
bms2nt.sh
bms2rdf.sh
bms2virtuoso.sh
bmschk_rdf.sh
bmszip_rdf.sh
chkrdflinks.sh
clean_all.sh
clear_graph.sh
init_virtuoso.sh
run_all.sh
run_sparql.sh
start_virtuoso.sh
stop_virtuoso.sh
update_rsrc.sh
virtuoso.ini

README.md

BMRBoTool

The BMRBoTool converts NMR-STAR data (BMRB/XML) into RDF format (BMRB/RDF). Along with the BMRB/RDF, BMRBoTool generates its ontology in the OWL format (BMRB/OWL). The both RDF and OWL constitutes a standard model for data interchange on the Web and makes it possible to query across diverse data sources using RDF query language, SPARQL.
BMRBoTool is designed to work in combination with BMRBxTool which generates validated BMRB/XML files.
The PDBj-BMRB Data Server has opened for publishing these alternative representations of NMR-STAR data.

Usage

Please refer to INSTALL.

Reference

  • Masashi Yokochi, Naohiro Kobayashi, Eldon L. Ulrich, Akira R. Kinjo, Takeshi Iwata, Yannis E. Ioannidis, Miron Linvy, John L. Markley, Haruki Nakamura, Chojiro Kojima, Toshimichi Fujiwara.
    "Publication of nuclear magnetic resonance experimental data with semantic web technology and the application thereof to biomedical research of proteins", J. Biomed. Semantics, 7, 1-4 (2016)