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Model SEED Data

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pfrybar edited this page Mar 21, 2012 · 4 revisions

Object Tree

Data Structure

Annotation

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • name (STR)
  • genome_uuid (STR)

Biochemistry

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • public (INT)
  • name (STR)

Biomass

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)

Compartment

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)

Complex

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • searchname (STR)

Compound

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • abbreviation (STR)
  • cksum (STR)
  • unchargedFormula (STR)
  • formula (STR)
  • mass (NUM)
  • defaultCharge (NUM)
  • deltaG (NUM)
  • deltaGErr (NUM)

CompoundSet

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • searchname (STR)
  • class (STR)
  • type (STR)

Feature

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • cksum (STR)
  • genome_uuid (STR)
  • start (INT)
  • stop (INT)

Genome

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked TINYINT(1)
  • public (INT)
  • id (STR)
  • name (STR)
  • source (STR)
  • type (STR)
  • taxonomy (STR)
  • cksum (STR)
  • size (INT)
  • genes (INT)
  • gc (NUM)
  • gramPositive (STR)
  • aerobic (STR)

Mapping

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • public (INT)
  • name (STR)
  • biochemistry_uuid (STR)

Media

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • type (STR)

Model

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • public (INT)
  • id (STR)
  • name (STR)
  • version (INT)
  • type(STR)
  • status (STR)
  • reactions (INT)
  • compounds (INT)
  • annotations (INT)
  • growth (NUM)
  • current (INT)
  • mapping_uuid (STR)
  • biochemistry_uuid (STR)
  • annotation_uuid (STR)

ModelFBA

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • model_uuid (STR)
  • media_uuid (STR)
  • options (STR)
  • geneko (STR)
  • reactionko (STR)

Reaction

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • abbreviation (STR)
  • cksum (STR)
  • equation (STR)
  • deltaG (NUM)
  • deltaGErr (NUM)
  • reversibility (STR)
  • thermoReversibility (STR)
  • defaultProtons (NUM)
  • compartment_uuid (STR)
  • defaultTransproton (NUM)

ReactionRule

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • reaction_uuid (STR)
  • compartment_uuid (STR)
  • direction (STR)
  • transprotonNature (STR)

ReactionSet

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • searchname (STR)
  • class (STR)
  • type (STR)

Reagent

Attributes

  • reaction_uuid (STR)
  • compound_uuid (STR)
  • compartmentIndex (INT)
  • coefficient (NUM)
  • cofactor (INT)

Role

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • searchname (STR)
  • feature_uuid (STR)

RoleSet

Attributes

  • uuid (STR)
  • modDate (STR)
  • locked (INT)
  • id (STR)
  • name (STR)
  • searchname (STR)
  • class (STR)
  • type (STR)
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