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Model changes for WS250.
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Matt Russell committed Apr 5, 2016
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Showing 1 changed file with 47 additions and 45 deletions.
92 changes: 47 additions & 45 deletions models/models.wrm.annot
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Original file line number Diff line number Diff line change
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Status UNIQUE ENUM ^status Live #Evidence
Suppressed #Evidence
Dead #Evidence
Gene_info Gene_class UNIQUE ?Gene_class OUTXREF Genes
Gene_info Biotype UNIQUE ?SO_term
Gene_class UNIQUE ?Gene_class OUTXREF Genes
Laboratory ?Laboratory
Cloned_by #Evidence // mt3 acreditation of person who cloned gene [060829 ar2]
Reference_allele ?Variation #Evidence
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Remark ?Text #Evidence
Isolation Author ?Author // use Person where possible, else use Author
Person ?Person
Date DateType
Date UNIQUE DateType
Mutagen UNIQUE Text ^name UNIQUE Text ^dose // Text is dose
Source_rearrangement ?Rearrangement OUTXREF Derived_rearrangement
Source_rearrangement UNIQUE ?Rearrangement OUTXREF Derived_rearrangement
Derived_rearrangement ?Rearrangement INXREF Source_rearrangement
Map ?Map OUTXREF Rearrangement #Map_position
Positive Gene_inside ?Gene OUTXREF Inside_rearr #Evidence
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////////////////////////////////////////////////////////////////////////////////

?Strain Evidence #Evidence
Genotype Text
Genotype UNIQUE Text
Other_name ?Text #Evidence
Contains Gene ?Gene INXREF Strain
Variation ?Variation INXREF Strain
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Isofemale // Text
Multifemale // Text
Inbred // Text
Outcrossed Text
Outcrossed UNIQUE Text
Mutagen Text
Strain_history Text
Date_first_frozen UNIQUE DateType
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///////////////////////////////////////////////////////


?GO_annotation Gene ?Gene OUTXREF GO_annotation
GO_term ?GO_term OUTXREF GO_annotation
GO_code ?GO_code
?GO_annotation Gene UNIQUE ?Gene OUTXREF GO_annotation
GO_term UNIQUE ?GO_term OUTXREF GO_annotation
GO_code UNIQUE ?GO_code
Annotation_relation NOT
colocalizes_with
contributes_to
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GO_term_relation ?Text UNIQUE ?GO_term
Annotation_isoform ?Text ?Protein
Interacting_species ?Species ?Strain
Reference ?Paper OUTXREF GO_annotation
GO_reference ?Database ?Database_field ?Text
Contributed_by ?Analysis
Reference UNIQUE ?Paper OUTXREF GO_annotation
GO_reference UNIQUE ?Database ?Database_field ?Text
Contributed_by UNIQUE ?Analysis
Date_last_updated UNIQUE DateType

////////////////////////////////////////////////////////
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?GO_term Name ?Text
Definition ?Text
Term ?Text
Alt_id ?Text
Synonym ENUM ^scope Broad ?Text
Exact ?Text
Narrow ?Text
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Expr_pattern ?Expr_pattern INXREF GO_term
Picture ?Picture INXREF Cellular_component
GO_annotation ?GO_annotation INXREF GO_term
Version UNIQUE Text // UNIQUE Text // Lincoln, to store version number of GO - only on 3 parent_terms [krb 031028] tad killed second text because not used
Version UNIQUE Text

///////////////////////////////////////////////////////////////
//
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////////////////////////////////////////////////////////////////


?SO_term SO_name ^name ?Text
SO_definition ^definition ?Text
?SO_term SO_name UNIQUE ^name ?Text
SO_definition UNIQUE ^definition ?Text
SO_synonym ^synonym ?Text
SO_version ?Text
Located_sequence_feature UNIQUE Junction
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Protein ?Protein OUTXREF Expr_pattern
Protein_description Text // information for Expr_patterns with unknown antigens [031105 krb]
// Homol Homol_homol ?Homol_data XREF Expr_homol ?Method Float Int UNIQUE Int Int UNIQUE Int #Homol_info //Expr_pattern mapping [060427 ar2]
Expressed_in Life_stage ?Life_stage OUTXREF Expr_pattern #Qualifier
// Cell_group ?Cell_group OUTXREF Expr_pattern #Qualifier
// Cell ?Cell OUTXREF Expr_pattern #Qualifier
Anatomy_term ?Anatomy_term OUTXREF Expr_pattern #Qualifier
GO_term ?GO_term OUTXREF Expr_pattern #GR_condition
Expression_data Life_stage ?Life_stage OUTXREF Expr_pattern #Qualifier
Anatomy_term ?Anatomy_term OUTXREF Expr_pattern #Qualifier
GO_term ?GO_term OUTXREF Expr_pattern #GR_condition
Not_in_Life_stage ?Life_stage #Qualifier
Not_in_Anatomy_term ?Anatomy_term #Qualifier
Not_in_GO_term ?GO_term #GR_condition
Subcellular_localization ?Text
Type Reporter_gene ?Text FILL_DEFAULT
In_situ Text FILL_DEFAULT
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//
/////////////////////////////////////////////////////////////////////////////////////////////

?Antibody Summary ?Text #Evidence
?Antibody Summary UNIQUE ?Text #Evidence
Other_name Text
Gene ?Gene OUTXREF Antibody #Evidence
Isolation Original_publication UNIQUE ?Paper
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// Fate Cell_type ?Text // e.g. muscle, neuron,hypodermis, gland
// Program ?Text //division, differentiation, death, and differs between sexes
// Syncitial_cell ?Cell_group OUTXREF Nucleus //see Cell_group,
// Summary Text // the whole of old remark plus more to be added by Raymond
// Summary UNIQUE Text #Evidence // the whole of old remark plus more to be added by Raymond
// Embryo_division_time Text
// Remark ?Text #Evidence
// Lineage Parent UNIQUE ?Cell OUTXREF Daughter
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// Tree_Node ?TreeNode NOXREF Cell
// Reference ?Paper OUTXREF Cell
// GO_term ?GO_term OUTXREF Cell ?GO_code #Evidence
// Data Expr_pattern ?Expr_pattern NOXREF Cell
// Reconstruction ?Reconstruction OUTXREF Cell #ReconCellInfo
// Neurodata ?Cell #Neurodata
// // Atlas ?Atlas XREF Cell
// Data Reconstruction ?Reconstruction OUTXREF Cell #ReconCellInfo
// Neurodata ?Cell #Neurodata
// Atlas ?Atlas XREF Cell
// Link_diagram Text


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// Organ
// Region
// Lineage //put in for Lilncoln some time ago
// Expr_pattern ?Expr_pattern NOXREF Cell_group
// Life_stage ?Life_stage OUTXREF Cell_group
// Anatomy_term ?Anatomy_term OUTXREF Cell_group
// Reference ?Paper OUTXREF Cell_group
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?Transgene Evidence #Evidence
Public_name UNIQUE ?Text
Summary UNIQUE ?Text
Summary UNIQUE ?Text #Evidence
Synonym ?Text
Corresponding_variation UNIQUE ?Variation INXREF Corresponding_transgene //put in to unambiguously associate the allele/transgene
Construction Construct ?Construct INXREF Transgene_construct
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?Construct Evidence #Evidence
Public_name ?Text
Other_name ?Text
Summary ?Text //genotype like [Pmyo-2::GFP]
Summary UNIQUE ?Text #Evidence //genotype like [Pmyo-2::GFP]
Sequence_feature ?Feature OUTXREF Associated_with_construct
Driven_by_gene ?Gene OUTXREF Drives_construct #Evidence
Gene ?Gene OUTXREF Construct_product #Evidence
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////////////////////////////////////////////
//
// ?Phenotype_info Class
// ?Phenotype_info class
//
////////////////////////////////////////////

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Caused_by ?Gene #Evidence
Caused_by_other ?Text #Evidence
Rescued_by_transgene ?Transgene
Loss_of_function UNIQUE ENUM Hypomorph #Evidence
Amorph #Evidence
Uncharacterised_loss_of_function #Evidence
Gain_of_function UNIQUE ENUM Dominant_negative #Evidence
Hypermorph #Evidence
Neomorph #Evidence
Uncharacterised_gain_of_function #Evidence
Other_allele_type UNIQUE ENUM Wild_type #Evidence
Isoallele #Evidence
Mixed #Evidence
Variation_effect ENUM Gain_of_function_undetermined_type #Evidence
Antimorph_gain_of_function #Evidence
Dominant_negative_gain_of_function #Evidence
Hypermorph_gain_of_function #Evidence
Neomorph_gain_of_function #Evidence
Loss_of_function_undetermined_extent #Evidence
Null #Evidence
Predicted_null_via_sequence #Evidence
Probable_null_via_phenotype #Evidence
Hypomorph_reduction_of_function #Evidence
Predicted_hypomorph_via_sequence #Evidence
Probable_hypomorph_via_phenotype #Evidence
Wild_allele #Evidence
Affected_by Molecule ?Molecule #Evidence // ?Molecule model Karen Yook
Temperature_sensitive Heat_sensitive Text #Evidence
Cold_sensitive Text #Evidence
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//
//////////////////////////////////////////////////

?WBProcess Name ?Text
Summary ?Text #Evidence
Process_term ?Text
Public_name UNIQUE ?Text
?WBProcess Public_name UNIQUE ?Text
Summary UNIQUE ?Text #Evidence
Other_name ?Text
Related_topic Specialisation_of ?WBProcess OUTXREF Generalisation_of
Generalisation_of ?WBProcess INXREF Specialisation_of
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// WS246
// WS247
// WS248
//
// WS249
// WS250

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