Gene Interaction

==Gene_gene Interaction OA==

OA interface

• Tab 1
  • PGID
  • Interaction ID//generate automatically per entry
  • Non_directional //toggle on (default), off (color change by click) means effected/effector on.
  • Interaction Type//dropdown list with 11 types showing in .ace template
  • Effected Gene/Variation/Transgene//multiontology, corresponding to interactor in .ace file. order is not matter when dump to interactors
  • Effector Gene/Variation/Transgene//multiontology, corresponding to interactor in .ace file. order is not matter when dump to interactors

• Tab 2
  • Curator//dropdown list
  • Paper//ontology
  • RNAi ID//free text fiel
  • Phenotype//multiontology
  • Remark//big text
  • Sentence ID//sentence shows in term info
  • False Positive//toggle, will not give an id or no dump if the sentence is false positive, containing no interaction info
  • next sentence button

.ace template:

• Interaction : ""

• Interactor "WBGene" Variation ""
• Interactor "WBGene" Transgene ""
• Interactor "WBGene"

• Interaction_type Genetic Effector ""
• Interaction_type Genetic Effected ""
• Interaction_type Genetic Non_directional ""
• Interaction_type Genetic Interaction_RNAi ""
• Interaction_type Genetic Interaction_phenotype ""

• Interaction_type Regulatory Effector ""
• Interaction_type Regulatory Effected ""
• Interaction_type Regulatory Non_directional ""
• Interaction_type Regulatory Interaction_RNAi ""
• Interaction_type Regulatory Interaction_phenotype ""

• Interaction_type No_interaction Effector ""
• Interaction_type No_interaction Effected ""
• Interaction_type No_interaction Non_directional ""
• Interaction_type No_interaction Interaction_RNAi ""
• Interaction_type No_interaction Interaction_phenotype ""

• Interaction_type Predicted_interaction Non_directional ""
• Interaction_type Predicted_interaction Interaction_RNAi ""
• Interaction_type Predicted_interaction Interaction_phenotype ""

• Interaction_type Physical_interaction Effector ""
• Interaction_type Physical_interaction Effected ""
• Interaction_type Physical_interaction Interaction_RNAi ""
• Interaction_type Physical_interaction Interaction_phenotype ""

• Interaction_type Suppression Effector ""
• Interaction_type Suppression Effected ""
• Interaction_type Suppression Interaction_RNAi ""
• Interaction_type Suppression Interaction_phenotype ""

• Interaction_type Enhancement Effector ""
• Interaction_type Enhancement Effected ""
• Interaction_type Enhancement Interaction_RNAi ""
• Interaction_type Enhancement Interaction_phenotype ""

• Interaction_type Synthetic Non_directional ""
• Interaction_type Synthetic Interaction_RNAi ""
• Interaction_type Synthetic Interaction_phenotype ""

• Interaction_type Epistasis Effector ""
• Interaction_type Epistasis Effected ""
• Interaction_type Epistasis Interaction_RNAi ""
• Interaction_type Epistasis Interaction_phenotype ""

• Interaction_type Mutual_enhancement Non_directional ""
• Interaction_type Mutual_enhancement Interaction_RNAi ""
• Interaction_type Mutual_enhancement Interaction_phenotype ""

• Interaction_type Mutual_suppression Non_directional ""
• Interaction_type Mutual_suppression Interaction_RNAi ""
• Interaction_type Mutual_suppression Interaction_phenotype ""

• Paper ""
• Remark ""

== Some Notes for gene_gene_interaction ==

• two large scale papers
  • WBPaper00027155 (Weiwei's science paper) has 23128 objects, starting from WBInteraction0008637 and ending at WBInteraction0050578 (blank ids in between)
  • WBPaper00031465 (Lee's Nature Genetics paper) has 375491 objects, starting from WBInteraction 0100001, ending at WBInteraction047451 (which is the largest WBInteraction id in acedb)