Swate template Metabolomics MassSpec assay
Metabolomics, assay, Mass Spectrometry
v1.2.0 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) | Characteristic [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) | Component [chromatography column model] | Term Source REF (DPBO:0000048) | Term Accession Number (DPBO:0000048) | Component [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 (OBI:0302905) | Term Accession Number (OBI:0302905) | 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 | NCIT | https://bioregistry.io/NCIT:C165587 | silylation | carbon-13 atom | CHEBI | https://bioregistry.io/CHEBI:36928 | Shimadzu GCMS-QP2010 Ultra | GCMS-TQ series multifunctional autosampler AOC-6000 | medium polarity | Zebron ZB-AAA GC(10 m x 0.25 mm; Phenomenex) | SH-IP Guard Column | Nitrogen | NCIT | https://bioregistry.io/NCIT:C61863 | positive scan | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000130 | 50 | user-specific | 1300 | user-specific | Thermo Electron Trace DSQ quadrupole | electron 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 | electron multiplier | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000253 | analog-digital converter | MS | https://www.ebi.ac.uk/ols4/ontologies/ms/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMS_1000117 |