Gene Regulation

Gene_regulation OA

• Pgdbid - postgras database ID, entered automatically
• Name (free text) - usually a WBPaperID followed by regulated gene name, eg.WBPaper00036472_dod-3.a
• Summary (long text) - most of time copy and paste from paper directly with curator's slight modifications
• Antibody - antibody ontology, fill the field with existing antibody, inform the curator (myself) to curate non-existing antibody objects
• Reporter_gene (free text) -reporter gene construct, eg. [daf-16::gfp], translational fusion
• Transgene - transgene ontology, fill the field with existing transgene, need a way to inform transgene curator(Karen) when transgene is not existing yet
• In_situ (free text) - don't have to write anything in the field, but will need method (In_situ) shown.
• Northern (free text) - don't have to write anything in the field, but will need method (Northern) shown.
• Western (free text) - don't have to write anything in the field, but will need method (Western) shown.
• RT_PCR (free text) - don't have to write anything in the field, but will need method (RT_PCR) shown.
• Other_method (free text)
• Type - drop down list with 'Change_of_localization' and 'Change_of_level'
• Regulation_level - drop down list with 'Transcriptional', 'Post_transcriptional' and 'Post_translational'
• Allele - variation ontology and a way to inform relevant curator about non-existing allele
• RNAi - need a way to inform RNAi curators (Chris and Gary) about new RNAi id requirement. there need to be a way they can come in later and fill the field
• Trans_regulator_gene - I will enter gene by public/sequence name, please autocomplete with WBGeneID
• Molecule_regulator - Karen's molecule ontology, and a way to inform her non-existing molecules
• Expr_pattern - since expr_pattern is not in postgres, I am not sure how to do this field. currently, I look up relevant expr_pattern, and copy paste into my ace file.For new expr_pattern objects, I have to wait wen to curate them first, then filled in my ace file.
• Trans_regulated_gene - I will enter gene by public/sequence name, please autocomplete with WBGeneID
• Positive_regulate
  • Anatomy_term - anatomy ontolgy
  • Life_stage - life_stage ontology
  • Subcellular_localization (free text)
• Negative_regulate
  • Anatomy_term - anatomy ontolgy
  • Life_stage - life_stage ontology
  • Subcellular_localization (free text)
• Does_not_regulate - blank field
• Remark (long text)
• Reference - WBPaperID