Ontology QC Metrics

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The reasoner and regulation terms (2008)

Checks

  • Identified inconsistencies between the ‘regulates’ hierarchy and the rest of biological process
  • Identified missing links
  • Identified more specific and complete is_a parentage for ‘regulation’ terms.

Stats from first round

  • Terms:
    • 279 reviewed.
    • 40 added.
    • 5 term merges took place.
    • 207 names changed.
    • 272 general dbxrefs were added.
  • Definitions:
    • 40 added.
    • 45 improved.
    • 312 dbxrefs added.
  • Relationships:
    • 37 new part_of relationships were made.
    • 143 new is_a relationships were made.
    • 16 part_of relationships deleted.
    • 101 is_a relationships deleted.
  • Synonyms:
    • 196 added.
    • 200 assigned a scope.
    • 38 deleted.

Missing links and regulation (2008)

  • 969 new is_a relationships added
  • 302 is_a relationships deleted

Inconsistencies, relationships, and regulation (round 2; 2008)

  • Terms:
    • 870 reviewed.
    • 13 added.
    • 153 names changed.
    • 218 general dbxrefs were added.
  • Definitions:
    • 18 added.
    • 39 improved.
    • 275 dbxrefs added.
  • Relationships:
    • 27 new part_of relationships were made.
    • 196 new is_a relationships were made.
    • 16 part_of relationships deleted.
    • 143 is_a relationships deleted.
  • Synonyms:
    • 115 added.
    • 128 assigned a scope.
    • 4 deleted.

Missing links and regulation (2008, part 2)

  • 481 new is_a relationships added
  • 148 is_a relationships deleted

Multiple part_of parents

Reviewed all 256 biological process terms with more than one part_of parent. 75 of these terms needed to have either a part_of relationship deleted or two specific is_a children added. 181 terms were legitimately part of more than one biological process.