Difference between revisions of "WormBase Model:Transgene"

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                 Driven_by Driven_by_gene          ?Gene XREF Drives_transgene
 
                 Driven_by Driven_by_gene          ?Gene XREF Drives_transgene
 
                           Driven_by_construct      ?Text //for artificial promoters     
 
                           Driven_by_construct      ?Text //for artificial promoters     
                 Reporter_product GFP
+
                 Reporter_product GFP //The following tags describe the reporter products
                                 YFP //Added by Wen
+
                                 YFP  
                                 CFP //Added by Wen
+
                                 CFP  
                                 Venus //Added by Wen
+
                                 Venus
                                 DsRed //Added by Wen
+
                                 DsRed
                                 mCherry //Added by Wen
+
                                 mCherry
                                 RFP //Added by Wen
+
                                 RFP
 
                                 LacZ
 
                                 LacZ
 
                                 Other_reporter ?Text
 
                                 Other_reporter ?Text
                                 Gene ?Gene XREF Transgene_product Text
+
                                 Gene ?Gene XREF Transgene_product Text //reporter gene
                 Isolation Author ?Author
+
                 Isolation Author ?Author //Authors who created the transgene
 
                           Clone ?Clone XREF Transgene Text //injected clone conc.
 
                           Clone ?Clone XREF Transgene Text //injected clone conc.
 
                           Fragment Text Text //injected DNA fragment conc.  
 
                           Fragment Text Text //injected DNA fragment conc.  
                           Injected_into_CGC_strain ?Strain
+
                           Injected_into_CGC_strain ?Strain  
 
                           Injected_into Text    // for strains not available in CGC
 
                           Injected_into Text    // for strains not available in CGC
                           Integrated_by UNIQUE Gamma_ray
+
                           Integrated_by UNIQUE Gamma_ray //this is the integration method
 
                                               X_ray
 
                                               X_ray
 
                                               Spontaneous
 
                                               Spontaneous
Line 43: Line 43:
 
                 Location ?Laboratory #Lab_Location //Which Labs have the transgene.
 
                 Location ?Laboratory #Lab_Location //Which Labs have the transgene.
 
                 Strain ?Strain XREF Transgene //All strains in CGC with the transgene.
 
                 Strain ?Strain XREF Transgene //All strains in CGC with the transgene.
                 Map ?Map  #Map_position  
+
                 Map ?Map  #Map_position //map position
                 Map_evidence #Evidence //For wen - many papers refer to Transgene. This will allow curators to track which is used.
+
                 Map_evidence #Evidence //For wen - many papers refer to Transgene. This will allow curators to track which is used for mapping
 
                 Mapping_data 2_point ?2_point_data  
 
                 Mapping_data 2_point ?2_point_data  
 
                             Multi_point ?Multi_pt_data
 
                             Multi_point ?Multi_pt_data
 
                 Phenotype ?Phenotype XREF Transgene #Phenotype_info // [2006-04-20 ar2] changed for Carols Phenotype changes
 
                 Phenotype ?Phenotype XREF Transgene #Phenotype_info // [2006-04-20 ar2] changed for Carols Phenotype changes
 
                 Phenotype_not_observed ?Phenotype XREF Not_in_Transgene #Phenotype_info  //added by Wen to separate Not phenotype from real phenotypes
 
                 Phenotype_not_observed ?Phenotype XREF Not_in_Transgene #Phenotype_info  //added by Wen to separate Not phenotype from real phenotypes
                 Rescue ?Gene XREF Rescued_by_Transgene ?Variation XREF Rescued_by_Transgene
+
                 Rescue ?Gene XREF Rescued_by_Transgene ?Variation XREF Rescued_by_Transgene //if the transgene rescue a mutant
                 Expr_pattern ?Expr_pattern XREF Transgene                                        // Related Expr_pattern
+
                 Expr_pattern ?Expr_pattern XREF Transgene                                        //If the transgene is used for Expr_pattern
                 Marker_for  ?Text #Evidence //Marker Summary
+
                 Marker_for  ?Text #Evidence //if the transgene is used as a tissue specific marker.
 
                 Marked_rearrangement ?Rearrangement XREF By_transgene
 
                 Marked_rearrangement ?Rearrangement XREF By_transgene
                 Gene_regulation ?Gene_regulation XREF Transgene
+
                 Gene_regulation ?Gene_regulation XREF Transgene //if the transgenes is used for gene regulation assy
                 Interactor ?Interaction
+
                 Interactor ?Interaction //If the transgene is involved in interaction
 
                 Reference ?Paper XREF Transgene                                                  // papers refered to the transgene.
 
                 Reference ?Paper XREF Transgene                                                  // papers refered to the transgene.
 
                 Species UNIQUE ?Species                                                          // added by krb for consistency with other classes 021030
 
                 Species UNIQUE ?Species                                                          // added by krb for consistency with other classes 021030

Revision as of 21:30, 7 December 2010

WormBase Models

Curator Comments/Description

Model

///////////////////////////////////////////////////////////////////////////////
//Transgene class from Wen Chen 12/00
/////////////////////////////////////////////////////////////////////////////// 

?Transgene      Summary UNIQUE ?Text //Searchable description of the transgene
                Synonym ?Text //for alternative names 
                Driven_by Driven_by_gene           ?Gene XREF Drives_transgene
                          Driven_by_construct      ?Text //for artificial promoters     
                Reporter_product GFP //The following tags describe the reporter products
                                 YFP 
                                 CFP 
                                 Venus
                                 DsRed
                                 mCherry
                                 RFP
                                 LacZ
                                 Other_reporter ?Text
                                 Gene ?Gene XREF Transgene_product Text //reporter gene
                Isolation Author ?Author //Authors who created the transgene
                          Clone ?Clone XREF Transgene Text //injected clone conc.
                          Fragment Text Text //injected DNA fragment conc. 
                          Injected_into_CGC_strain ?Strain 
                          Injected_into Text    // for strains not available in CGC
                          Integrated_by UNIQUE Gamma_ray //this is the integration method
                                               X_ray
                                               Spontaneous
                                               UV
                                               Particle_bombardment
                                               Not_integrated
                                               Other_integration_method Text 
                Location ?Laboratory #Lab_Location //Which Labs have the transgene.
                Strain ?Strain XREF Transgene //All strains in CGC with the transgene.
                Map ?Map  #Map_position  //map position
                Map_evidence #Evidence //For wen - many papers refer to Transgene. This will allow curators to track which is used for mapping
                Mapping_data 2_point ?2_point_data 
                             Multi_point ?Multi_pt_data
                Phenotype ?Phenotype XREF Transgene #Phenotype_info // [2006-04-20 ar2] changed for Carols Phenotype changes
                Phenotype_not_observed ?Phenotype XREF Not_in_Transgene #Phenotype_info  //added by Wen to separate Not phenotype from real phenotypes
                Rescue ?Gene XREF Rescued_by_Transgene ?Variation XREF Rescued_by_Transgene //if the transgene rescue a mutant
                Expr_pattern ?Expr_pattern XREF Transgene                                        //If the transgene is used for Expr_pattern
                Marker_for   ?Text #Evidence //if the transgene is used as a tissue specific marker.
                Marked_rearrangement ?Rearrangement XREF By_transgene
                Gene_regulation ?Gene_regulation XREF Transgene //if the transgenes is used for gene regulation assy
                Interactor ?Interaction //If the transgene is involved in interaction
                Reference ?Paper XREF Transgene                                                  // papers refered to the transgene.
                Species UNIQUE ?Species                                                          // added by krb for consistency with other classes 021030
                Remark ?Text #Evidence                                                           // More comments on the transgene
                Supporting_data Movie ?Movie XREF Transgene #Evidence
                                Picture ?Picture XREF Transgene #Evidence

Proposed Changes

Unused tags

2_point

Rescue

Supporting_data

Movie

Picture