Difference between revisions of "WormBase Model:RNAi"
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== Curator Comments/Description == | == Curator Comments/Description == | ||
− | + | ////////////////////////////////////////////////////////////////// | |
+ | // | ||
+ | // ?RNAi class | ||
+ | // | ||
+ | // Initially from Lincoln Stein December, 2000 | ||
+ | // | ||
+ | // Heavily modified by Igor November, 2004 | ||
+ | // | ||
+ | ////////////////////////////////////////////////////////////////// | ||
Line 11: | Line 19: | ||
== Model == | == Model == | ||
<pre> | <pre> | ||
+ | |||
+ | |||
+ | |||
+ | ?RNAi Evidence #Evidence | ||
+ | History_name UNIQUE ?Text | ||
+ | Homol Homol_homol ?Homol_data XREF RNAi_homol ?Method Float Int UNIQUE Int Int UNIQUE Int #Homol_info | ||
+ | Sequence_info DNA_text Text UNIQUE Text //stores actual probe sequence for automated mapping | ||
+ | // 1st Text is DNA, 2nd is probe name | ||
+ | Sequence ?Sequence XREF RNAi //links to a real Sequence object used in the experiment | ||
+ | // such as yk clone; not UNIQUE anymore | ||
+ | PCR_product ?PCR_product XREF RNAi // links to a PCR_product object used in | ||
+ | // the experiment; not UNIQUE anymore | ||
+ | Uniquely_mapped //boolean; if present, signifies that ?RNAi object has a unique sequence | ||
+ | // which maps to a single place in the genome | ||
+ | Experiment Laboratory ?Laboratory | ||
+ | Author ?Author | ||
+ | Date UNIQUE DateType | ||
+ | Strain UNIQUE ?Strain | ||
+ | Genotype UNIQUE ?Text //used when no Strain object exists | ||
+ | Treatment UNIQUE ?Text | ||
+ | Life_stage UNIQUE ?Life_stage | ||
+ | Temperature UNIQUE Int | ||
+ | Delivered_by UNIQUE Bacterial_feeding //RL [010327] | ||
+ | Injection //RL [010327] | ||
+ | Soaking //RL [010327] | ||
+ | Transgene_expression //RL [010327] | ||
+ | Inhibits Predicted_gene ?CDS XREF RNAi_result #Evidence // "gene" parent (unreliable) | ||
+ | Gene ?Gene XREF RNAi_result #Evidence //RL [010327] | ||
+ | Transcript ?Transcript XREF RNAi_result #Evidence // [021126 krb] | ||
+ | Pseudogene ?Pseudogene XREF RNAi_result #Evidence // [030801 krb] | ||
+ | Supporting_data Movie ?Movie XREF RNAi // Lincoln, krb [010807] | ||
+ | Picture ?Picture XREF RNAi | ||
+ | DB_info Database ?Database ?Database_field ?Accession_number //to link out to Phenobank ar2 02-DEC-05 //removed UNIQUE as reqs multiple connections | ||
+ | Species UNIQUE ?Species | ||
+ | Gene_regulation ?Gene_regulation XREF RNAi // this tag is used when an RNAi experiment describes gene regulation ar2 29-MAR-06 for igor | ||
+ | Interaction ?Interaction | ||
+ | Reference UNIQUE ?Paper XREF RNAi //[070215 ar2] made reference unique so Paper sort of equates to a Study class for Will S | ||
+ | Phenotype ?Phenotype XREF RNAi #Phenotype_info | ||
+ | Expr_profile ?Expr_profile XREF RNAi_result // connection added during build [030106 krb] | ||
+ | Remark ?Text #Evidence | ||
+ | Method UNIQUE ?Method | ||
</pre> | </pre> | ||
== Proposed Changes == | == Proposed Changes == |
Revision as of 15:14, 15 July 2010
Curator Comments/Description
////////////////////////////////////////////////////////////////// // // ?RNAi class // // Initially from Lincoln Stein December, 2000 // // Heavily modified by Igor November, 2004 // //////////////////////////////////////////////////////////////////
Model
?RNAi Evidence #Evidence History_name UNIQUE ?Text Homol Homol_homol ?Homol_data XREF RNAi_homol ?Method Float Int UNIQUE Int Int UNIQUE Int #Homol_info Sequence_info DNA_text Text UNIQUE Text //stores actual probe sequence for automated mapping // 1st Text is DNA, 2nd is probe name Sequence ?Sequence XREF RNAi //links to a real Sequence object used in the experiment // such as yk clone; not UNIQUE anymore PCR_product ?PCR_product XREF RNAi // links to a PCR_product object used in // the experiment; not UNIQUE anymore Uniquely_mapped //boolean; if present, signifies that ?RNAi object has a unique sequence // which maps to a single place in the genome Experiment Laboratory ?Laboratory Author ?Author Date UNIQUE DateType Strain UNIQUE ?Strain Genotype UNIQUE ?Text //used when no Strain object exists Treatment UNIQUE ?Text Life_stage UNIQUE ?Life_stage Temperature UNIQUE Int Delivered_by UNIQUE Bacterial_feeding //RL [010327] Injection //RL [010327] Soaking //RL [010327] Transgene_expression //RL [010327] Inhibits Predicted_gene ?CDS XREF RNAi_result #Evidence // "gene" parent (unreliable) Gene ?Gene XREF RNAi_result #Evidence //RL [010327] Transcript ?Transcript XREF RNAi_result #Evidence // [021126 krb] Pseudogene ?Pseudogene XREF RNAi_result #Evidence // [030801 krb] Supporting_data Movie ?Movie XREF RNAi // Lincoln, krb [010807] Picture ?Picture XREF RNAi DB_info Database ?Database ?Database_field ?Accession_number //to link out to Phenobank ar2 02-DEC-05 //removed UNIQUE as reqs multiple connections Species UNIQUE ?Species Gene_regulation ?Gene_regulation XREF RNAi // this tag is used when an RNAi experiment describes gene regulation ar2 29-MAR-06 for igor Interaction ?Interaction Reference UNIQUE ?Paper XREF RNAi //[070215 ar2] made reference unique so Paper sort of equates to a Study class for Will S Phenotype ?Phenotype XREF RNAi #Phenotype_info Expr_profile ?Expr_profile XREF RNAi_result // connection added during build [030106 krb] Remark ?Text #Evidence Method UNIQUE ?Method