Difference between revisions of "WormBase Model:Mass spec experiment"

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(Created page with '__TOC__ WormBase Models == Curator Comments/Description == == Model == <pre> </pre> == Proposed Changes ==')
 
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== Model ==
 
== Model ==
 
<pre>
 
<pre>
 +
?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
 +
  
 
</pre>
 
</pre>
  
 
== Proposed Changes ==
 
== Proposed Changes ==
 +
 +
 +
=== unused tags ===
 +
 +
Laboratory
 +
 +
Author
 +
 +
Genotype
 +
 +
Anatomy_term
 +
 +
Cell_type
 +
 +
Minimum_ion_proportion
 +
 +
Minimum_peptide_length

Revision as of 08:31, 17 August 2010

WormBase Models

Curator Comments/Description

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