KnowPulse Content Types

The following breaks down our content types based on the primary Chado table storing their data.

• chado.organism table (full table)
  • Species (OBI:organism)
• chado.project table (seperated using projectprop)
  • Research Project (semantic science ontology; study; SIO:001066)
  • Genome Project (local:genome)
• chado.publication (full table)
  • Publication (TPUB; Publication)
• chado.feature table (seperated using feature.type_id)
  • Variant (Sequence Ontology; sequence_variant)
  • Genetic Marker (Sequence Ontology; genetic_marker)
  • QTL (Sequence Ontology; QTL; SO:0000771)
• chado.stock (seperated using stock.type_id)
  • Germplasm Accession (Crop ontology; accession; CO_010:0000044)
  • Breeding Cross (local:F1)
  • Registered Varieties (Sequence Ontology; cultivar; CO_010:0000029)
  • Recombinant Inbred Line (local:Recombinant Inbred Line)
  • Biological Sample (biological sample; sep:00195)
• chado.cvterm (specific cv_id)
  • Chickpea Trait (CO_338:ROOT)
  • Common Bean Trait (CO_335:ROOT)
  • Lentil Trait (CO_339:ROOT)
• chado.featuremap (full table)
  • Genetic Map (data onotology; Map)
• chado.stock_collection (full table)
  • Stock Collections (don’t know what term to use yet)

General Types:

• Species (Organism)
• Research Project
• Publication

Genomic Types:

• Genome Project
• Variant
• Genetic Marker

Germplasm Types:

• Germplasm Accession
• Cultivated Variety
• Breeding Cross
• Recombinant Imbred Line
• Stock Collection