Unified Medical Language System® (UMLS®)
HPO Source Information
This page lists specific source data elements and provides information on their representation in the UMLS Metathesaurus.
Summary of Changes:)
New TTY: OET - Obsolete Entry Term
Source-Provided Files: Summary( )
Documentation on the obo format is available at: http://www.geneontology.org/
Source-Provided Files: Details( )
Content is structured as tag-value pairs, with optional trailing modifiers. Tag-value pairs consist of a tag name, an unescaped colon, the tag value, and a newline.
Consult the GO OBO format documentation at www.geneontology.org for additional details.
file:hp.oboFor inclusion in the Metathesaurus, all tags in a [Term] Stanza, are processed, as described in the OBO format documentation. Required tags:
|id||Unique identifier||MRCONSO.CODE, MRCONSO.SDUI|
TTY = "PT" if there is no is_obsolete flag
TTY = "OP" if is_obsolete = true
Optional tags: the following table lists only tags actually present in the data processed for inclusion in this version of the Metathesaurus. Tags are presented in the order in which they appear in a [Term] Stanza. For information on all optional OBO tags, including deprecated tags, please consult the OBO format documentation.
|comment||Comment||MRSAT.ATN = "HPO_COMMENT"|
TTYs are assigned based on the value of the scope
identifier and the presence or absence of the
REL values are assigned based on the value of the scope identifier
Optional dbxref lists included in synonym tags are represented in MRSAT.ATN = "REF"
|xref||Cross-reference (dbxref) describing an analagous term in another vocabulary||MRSAT.ATN = "HXR"|
|is_a||Indicates a subclassing relationship between one term and another||Used to create a hierarchy, represented in MRHIER.RRF and MRREL.RRF (REL = "PAR," "CHD," "SIB"; RELA = "isa")|
|is_obsolete||Indicates if a term is obsolete||Used to compute termtype assignments|
|replaced_by||Gives a term which replaces an obsolete term||MRREL.REL = "RO"
MRREL.RELA = "replaced_by/replaces"
|consider||Gives a term which may be an appropriate substitute or an obsolete term, but requires human review||MRREL.REL = "RO"
MRREL.RELA = "consider/consider_from"
|creation_date||Indicates the creation time and date of the term||MRSAT.ATN = "DATE_CREATED"|
|alt_id||An alternative (secondary) identifier||MRSAT.ATN = "SID"|