Swate template Metabolomics MassSpec assay
Metabolomics, assay, Mass Spectrometry
v1.1.8 released on 01/01/0001
by Dominik Brilhaus, Martin Kuhl
145 Downloads
Template Content
Building Blocks + example values
| Input [Source Name] | Protocol Type | Term Source REF (DPBO:1000161) | Term Accession Number (DPBO:1000161) | Parameter [MS sample post-extraction] | Term Source REF (DPBO:0000043) | Term Accession Number (DPBO:0000043) | Parameter [MS sample resuspension] | Term Source REF (DPBO:0000044) | Term Accession Number (DPBO:0000044) | Parameter [MS sample type] | Term Source REF (DPBO:0000045) | Term Accession Number (DPBO:0000045) | Parameter [MS derivatization] | Term Source REF (DPBO:0000052) | Term Accession Number (DPBO:0000052) | Parameter [label] | Term Source REF (CHEBI:35209) | Term Accession Number (CHEBI:35209) | Component [chromatography instrument model] | Term Source REF (DPBO:0000046) | Term Accession Number (DPBO:0000046) | Component [chromatography autosampler model] | Term Source REF (DPBO:0000047) | Term Accession Number (DPBO:0000047) | Parameter [chromatography column type] | Term Source REF (DPBO:0000053) | Term Accession Number (DPBO:0000053) | Parameter [chromatography column model] | Term Source REF (DPBO:0000048) | Term Accession Number (DPBO:0000048) | Parameter [chromatography guard column model] | Term Source REF (DPBO:0000049) | Term Accession Number (DPBO:0000049) | Parameter [mobile phase] | Term Source REF (CHMO:0000995) | Term Accession Number (CHMO:0000995) | Parameter [elution] | Term Source REF () | Term Accession Number () | Parameter [scan polarity] | Term Source REF (MS:1000465) | Term Accession Number (MS:1000465) | Parameter [scan window lower limit] | Term Source REF (MS:1000501) | Term Accession Number (MS:1000501) | Parameter [scan window upper limit] | Term Source REF (MS:1000500) | Term Accession Number (MS:1000500) | Component [instrument model] | Term Source REF (MS:1000031) | Term Accession Number (MS:1000031) | Parameter [ionization type] | Term Source REF (MS:1000008) | Term Accession Number (MS:1000008) | Parameter [mass analyzer type] | Term Source REF (MS:1000443) | Term Accession Number (MS:1000443) | Parameter [detector type] | Term Source REF (MS:1000026) | Term Accession Number (MS:1000026) | Parameter [detector acquisition mode] | Term Source REF (MS:1000027) | Term Accession Number (MS:1000027) | Output [Sample Name] |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| assay protocol | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000177 | dried in a vacuum centrifuge, resuspended in ddH2O | user-specific | dried samples resuspended in pyridine | user-specific | pooled sample | user-specific | silylation | user-specific | 13C | user-specific | positive | user-specific | 50 | user-specific | 1300 | user-specific | electrospray ionization | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000073 | quadrupole | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000081 | ||||||||||||||||||||||||||||||||||||||||
| assay protocol | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000177 | Solid phase microextraction (SPME) | user-specific | dried samples resuspended in acetonitrile | user-specific | medium blank | user-specific | methoxymation and silylation | user-specific | 15N | user-specific | negative | user-specific | 60 | user-specific | 1200 | user-specific | electrospray ionization | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000073 | single quadrupole | user-specific | |||||||||||||||||||||||||||||||||||||||||
| assay protocol | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000177 | direct injection | user-specific | Quality Control | NFDI4PSO | http://purl.obolibrary.org/obo/NFDI4PSO_1000112 | methoxymation | user-specific | 50 | user-specific | 650 | user-specific | electron ionization | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000389 | ||||||||||||||||||||||||||||||||||||||||||||||||
| assay protocol | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000177 | dried in vacuum concentrator | user-specific | retention index standard | user-specific | methoxyamination + trimethylsylilation (TMS) | user-specific | electron impact | user-specific | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
| assay protocol | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000177 | experimental sample | user-specific |