NMR.owl

(NMR-instrument specific component of metabolomics investigations)

NMR.owl formalizes descriptors relevant to the experimental conditions of the Nuclear Magnetic Resonance (NMR) component in a metabolomics investigation. Currently the NMR.owl is a pure taxonomy of 247 classes in owl-DL format and only annotation properties have been assigned to the classes. The terms are 'binned' under some 'web imported' OBI and BFO classes (bfo.owl being secondaryly imported via OBI). The NMR.owl will also serve as a test bed to evaluate the BFO top level ontology as well as the owl-import, modularization and referencing mechanism.
To be able to reason, we are owl-DL compliant. The NMR.owl has been developed in full compliance to OBO foundry best practices and also in close alignment with the OBI working group we (MSI OWG) are part as representatives of the metabolomics domain.
During our development, neither unified naming conventions, nor common recommendations were agreed upon by the ontology-oriented communities. Therefore the MSI OWG has worked to propose good practice for naming Knowledge Representation (KR) idioms, so that the lists of CVs collected are consistent locally at the syntactic level. Once collected the terms have been normalised according to the proposed naming conventions and taxonomised using Protege. The naming conventions document has also been agreed upon and is applied by HUPO-PSI Ontology and OBI Working Groups. The latest draft of the naming conventions is available at: http://msi-ontology.sourceforge.net/recommendations
Keywords: NMR, nuclear magnetic resonance, metabolomics, metabolomics investigation, metabolomics experiment
Important top level classes: NMR_instrument, NMR_instrument_configuration, NMR_parameter_set, NMR_vendor, NMR_software, data_processing_method, NMR_spectrum, NMR-data-set, NMR_probe
Intended application: data annotation, reporting requirements
Usage: in development

Meta-Annotations using dublin core

dc:contributor In alphabetical order: Andy Tseng (Human Serum Metabolome Project, Un of Manchester, UK), Bertram Ludaescher (UCDavis Genome Center, US), Chris Taylor (EBI and HUPO-PSI), Daniel Schober (EBI and HUPO-PSI), Dennis Rubtsov (Un of Cambridge, UK), Helen Jenkins (Un of Wales, Aberystwyth, UK), Irena Spasic (Center for Integrative Systems Biology, Manchester, UK), Larissa Soldatova (University of Wales, Aberystwyth, UK), Lori Querengasser (Un of Alberta, CA), Martin Scholz (UCDavis Genome Center, US), Matej Oresic (VTT Technical Research Centre of Finland, FI), Oliver Fiehn (UCDavis Genome Center, US), Philippe Rocca-Serra (EBI and MGED), Susanna-Assunta Sansone (EBI, HUPO-PSI and MGED))
dc:coverage This controlled vocabular (taxonomy) contains mainly Descriptors relevant to the experimental conditions of the Nuclear Magnetic Resonance (NMR) component in a metabolomics investigation.
dc:creator Daniel Schober, Susanna-Assunta Sansone Contact via MSI OWG mailing list (mailto:msi-workgroups-ontology@lists.sourceforge.net)
dc:date 06.11.2006
dc:description This is the initial draft of the msi-nmr-ontology binned under 'webimported' OBI and BFO classes. This is a primary discussion- and test-version to encourage nmr term development. As a secondary role this ontology serves as a testbed to evaluate the BFO top level ontology , modularization and the owl-import and referencing mechanism. The nmr ontology is developed by the ontology working group (http://msi-ontology.sourceforge.net/) of the msi-metabolomicssociety (msi-workgroups.sf.net).
dc:format owl-DL
dc:publisher msi-owg, http://msi-ontology.sourceforge.net/
dc:rights Free, no licenses needed
dc:title NMR-instrument specific component of metabolomics investigations
protege:defaultLanguage en

Namespaces

Default Namespace

http://msi-ontology.sourceforge.net/ontology/NMR.owl#
obi http://obi.sourceforge.net/ontology/OBI.owl#
snap http://www.ifomis.org/bfo/1.0/snap#
xsd http://www.w3.org/2001/XMLSchema#
protege-dc http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl#
protege http://protege.stanford.edu/plugins/owl/protege#
bfo http://www.ifomis.org/bfo/1.0#
rdfs http://www.w3.org/2000/01/rdf-schema#
owl http://www.w3.org/2002/07/owl#
dcterms http://purl.org/dc/terms/
xsp http://www.owl-ontologies.com/2005/08/07/xsp.owl#
dc http://purl.org/dc/elements/1.1/
rdf http://www.w3.org/1999/02/22-rdf-syntax-ns#
daml http://www.daml.org/2001/03/daml+oil#
span http://www.ifomis.org/bfo/1.0/span#

Imports

https://svn.sourceforge.net/svnroot/fugo/trunk/ontology/OBI.owl
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