This page lists UMLS Metathesaurus data elements and traces them back to the specific source data that populates them.
VSAB: GO2023_05_10
Data files in various formats and extensive documentation is
available at: http://www.geneontology.org/
File Name | Description |
---|---|
http://owlcollab.github.io/oboformat/doc/GO.format.obo-1_2.html | OBO format documentation |
File Name | Description |
---|---|
go.obo | OBO data file |
Identifier | Origin |
---|---|
CODE | tag = "id" |
SAUI | Not Applicable |
SCUI | Not Applicable |
SDUI | tag = "id" |
Term Type | Origin |
---|---|
ET | CODE: tag = "id" STR: tag = "synonym" SDUI: tag = "id" TTY = "ET" is assigned to the value of tag = "synonym" where the scope identifier is "BROAD," "NARROW," or "RELATED" in records where there is no "is_obsolete" tag. |
IS | CODE: tag = "id" STR: tag = "synonym" SDUI: tag = "id" TTY = "IS" is assigned to the value of tag = "synonym" where the scope identifier = "EXACT" and tag="is_obsolete" has a value of "true." |
MTH_ET | CODE: tag = "id" STR: tag = "synonym," with the word "location" included for clarification of selected strings from the Cellular Component Ontology. SDUI: tag = "id" TTY = "ET" is assigned to the value of tag = "synonym" where the scope identifier is "BROAD," "NARROW," or "RELATED" in records where there is no "is_obsolete" tag. For the GO Cellular Component Ontology, additional atoms are created for selected strings by including the word "location" in the STR, and prepending the TTY with "MTH_." This data is added during Metathesaurus source processing. |
MTH_IS | CODE: tag = "id" STR: tag = "synonym" with the word "location" included for clarification of selected strings from the Cellular Component Ontology. SDUI: tag = "id" TTY = "IS" is assigned to the value of tag = "synonym" where the scope identifier = "EXACT" and tag="is_obsolete" has a value of "true." For the GO Cellular Component Ontology, additional atoms are created for selected strings by including the word "location" in the STR, and prepending the TTY with "MTH_." This data is added during Metathesaurus source processing |
MTH_OP | CODE: tag = "id" STR: tag = "name" with the word "location" included for clarification of selected strings from the Cellular Component Ontology. SDUI: tag = "id" TTY = "OP" is assigned to the value of tag = "name" where tag = "is_obsolete" has a value of "true." For the GO Cellular Component Ontology, additional atoms are created for selected strings by including the word "location" in the STR, and prepending the TTY with "MTH_." This data is added during Metathesaurus source processing |
MTH_PT | CODE: tag = "id" STR: tag = "name" with the word "location" included for clarification of selected strings from the Cellular Component Ontology. SDUI: tag = "id" TTY = "PT" is assigned to the value of tag = "name" in records where there is no "is_obsolete" tag. For the GO Cellular Component Ontology, additional atoms are created for selected strings by including the word "location" in the STR, and prepending the TTY with "MTH_." This data is added during Metathesaurus source processing |
MTH_OET | CODE: tag = "id" STR: tag = "synonym," with the word "location" included for clarification of selected strings from the Cellular Component Ontology SDUI: tag = "id" TTY = "OET" is assigned to the value of tag = "synonym" where the scope identifier is "BROAD," "NARROW," or "RELATED" in records where is_obsolete has a value of "true." For the GO Cellular Component Ontology, additional atoms are created for selected strings by including the word "location" in the STR, and prepending the TTY with "MTH_." This data is added during Metathesaurus source processing. |
MTH_SY | CODE: tag = "id" STR: tag = "synonym" with the word "location" included for clarification of selected strings from the Cellular Component Ontology. SDUI: tag = "id" TTY = "SY" is assigned to the value of tag = "synonym" where the scope identifier is "EXACT" in records where ethere is no "is_obsolete" tag. For the GO Cellular Component Ontology, additional atoms are created for selected strings by including the word "location" in the STR, and prepending the TTY with "MTH_." This data is added during Metathesaurus source processing |
OET | CODE: tag = "id" STR: tag = "synonym" SDUI: tag = "id" TTY = "OET" is assigned to the value of tag = "synonym" where the scope identifier is "BROAD," "NARROW," or "RELATED" in records where is_obsolete has a value of "true." |
OP | CODE: tag = "id" STR: tag = "synonym" SDUI: tag = "id" TTY = "OP" is assigned to the value of tag = "name" in records where is_obsolete has a value of "true." |
PT | CODE: tag = "id" STR: tag = "synonym" SDUI: tag = "id" TTY = "PT" is assigned to the value of tag = "name" in reocrds with no "is_obsolete" tag. |
SY | CODE: tag = "id" STR: tag = "synonym" SDUI: tag = "id" TTY = "SY" is assigned to hte value of tag = synonyn where the scope identifier is "EXACT" in records where there is no "is_obsolete" tag. |
Attribute Name | Origin |
---|---|
DATE_CREATED | tag = "creation_date" |
DISJOINT_FROM | tag = "disjoint_from" |
GO_COMMENT | tag = "comment" |
GO_NAMESPACE | tag = "namespace" |
GO_SUBSET | tag = "subset" |
GXR | tag = "xref"" |
REF | tag = "synonym," dbxref list (information extracted from square brackets at the end of the field) |
SID | tag = "alt_id" |
SYN_QUALIFIER | tag = "synonym," qualifier (information following the scope identifier; currently the only value is "systematic synonym") |
REL | RELA Inverse RELA |
ORIGIN |
---|---|---|
CHD PAR |
isa inverse_isa |
hierarchy created from tag = "is_a" |
RN RB |
(no rela) | Connects an atom created from tag = "synonym" with a scope identifier of "BROAD" or "NARROW" with the preferred atom of the GO [term] record. |
RN RB |
part_of has_part |
tag = "relationship"; value = "part_of" |
RN RB |
isa inverse_isa |
used to reprsent the intersection_of tags where the value is a GO term_id. A relationship group is used to link pairs (or groups) of intersecting relationships. |
RO | (no rela) | Connects an atom created from tag = "synonym" with a scope identifier of "RELATED" with the preferred atom of the GO [term] record. |
RO | ends_during inverse_ends_during |
tag = "relationship"; value = "ends_during" |
RO | happens_during inverse_happens_during |
tag = "relationship"; value = "happens_during" |
RO | negatively_regulates negatively_regulated_by |
tag = "relationship"; value = "negatively_regulates" |
RO | occurs_in has_occurrence |
tag = "relationship"; value = "occurs_in" tag = "intersection_of"; relationship_type = "occurs_in". A relationships group is used to link pairs (or groups) of intersecting relationships. |
RO | positively_regulates positively_regulated_by |
tag = "relationship"; value = "positively_regulates" |
RO | regulates regulated_by |
tag = "relationship"; value = "regulates" |
RQ | consider consider_from |
created from tag = "consider" |
RQ | replaced_by replaces |
created from tag = "replaced_by" |
SY | (no rela) | Connects an atom created from tag = "synonym" with a scope identifier of "EXACT" with the preferred atom of the GO [term] record. |
SY | expanded_form_of has_expanded_form |
Connects atoms with TTY = "MTH_*" with their original form |