WormBase Model:Mass spec experiment

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WormBase Models

Curator Comments/Description

This gives details of a mass-spectrometry experiment and lists the peptides produced by that experiment.


Model

?Mass_spec_experiment Reference ?Paper XREF Mass_spec_experiment       // Describes the experiment
                      Remark Text #Evidence
                      Laboratory ?Laboratory    // use when a CGC-derived laboratory code is available, else ignore
                      Contact   Person ?Person  // use Person where possible, else use Author
                                Author ?Author
                      Origin Species UNIQUE ?Species
                             Strain UNIQUE ?Strain
                             Genotype ?Text            // in many cases the proper strain name is not available, use this instead
                             Life_stage ?Life_stage
                             Anatomy_term ?Anatomy_term
                             Cell_type ?Cell
                             Sub_cellular_localization Text
                      Digestion UNIQUE Trypsin
                                       Red_ALK
                      Ionisation_source     UNIQUE MALDI
                                                   ESI
                      Instrumentation UNIQUE IonTrap
                                             FT
                                             QTOF
                      Database Text            // database used to search for matches
                      Program Text             // program used to match MS data against databases
                      Minimum_ion_proportion UNIQUE Float
                      Multiple_ambiguous_IDs_allowed
                      Minimum_peptide_length UNIQUE Int
                      False_discovery_rate UNIQUE Float // percentage
                      Mass_spec_peptide ?Mass_spec_peptide XREF Mass_spec_experiments     // the resulting peptide data


Proposed Changes

unused tags

Laboratory

Author

Genotype

Anatomy_term

Cell_type

Minimum_ion_proportion

Minimum_peptide_length