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Unified Medical Language System® (UMLS®)

2012AB US Extension to SNOMED CT Source Information




Skip to: Atoms, Attributes, Definitions, Relationships, Mappings

VSAB: SCTUSX_2012_09_01

Summary of Changes

The directory structure and file names for the SCTUSX release have changed, however there are no changes to processing of files in the Terminology subdirectory.

The SCTUSX_2012_09_01 release includes a "Subsets/Language-en-US" subdirectory which was not present in the previous release.  These files were processed in accordance with the SNOMEDCT RF1 subset file processing. 

New ATNs:
    REFINABILITY and CHARACTERISTICTYPE are included in SCTUSX_2012_09_01.  These attributes were omitted from SCTUSX_2012_03_01

Original Files:

The RF1 format files were processed for SCTUSX_2012_09_01.  Metathesaurus SCTUSX data is extracted from the following tab-delimited files:

SnomedCT_Release_US1000124_20120901/RF1Release/Terminology/Content:
  • sct1_Concepts_US1000124_20120901.txt
    sct1_Descriptions_en-US_US1000124_20120901.txt
    sct1_Relationships_US1000124_20120901.txt
SnomedCT_Release_US1000124_20120901/RF1Release/Subsets/Language-en-US/
  • der1_SubsetMembers_en-US_US1000124_20120901.txt
    der1_Subsets_en-US_US1000124_20120901.txt
Note:  The SCTUSX hierarchy is designed as an extension to the SNOMEDCT hierarchy.  Due to complications in representing a mixed-source hierarchy, the SCTUSX hierarchy is not represented in MRHIER.RRF, however it is represented in MRREL.RRF as follows: 
  • REL/REL_INVERSE:  PAR/CHD
  • RELA/RELA_INVERSE:  inverse_isa/isa

Identifiers

Identifiers are assigned as follows:
  • CODE: CONCEPTID
  • SAUI: DESCRIPTIONID
  • SCUI: Same as CODE
  • SDUI: Not Applicable

    741

Atoms (MRCONSO)

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Note:   In SCTUSX_2012_03_01, there was exactly one PT for every FN.  In SCTUX_2012_09_01, there are fewer PTs than FNs, because some PTs are connected to SNOMEDCT FNs.

Term Type Origin
FN An FN (Fully Specified Name) atom is created for each line of sct1_Descriptions_en-US_US1000124_20120901.txt  having DESCRIPTIONTYPE=3, DESCRIPTIONSTATUS=0 as follows:
CODE, SCUI = CONCEPTID
SAUI = DESCRIPTIONID
STR = TERM
SUPPRESSIBLE=N
Note:  FN atoms are removed from processing when their ancestors are present only in SNOMEDCT RF2 files.  They will be included in a future Metathesaurus release.
OF An OF (Obsolete Fully specified name) atom is created for each line of sct1_Descriptions_en-US_US1000124_20120901.txt having DESCRIPTIONTYPE=3, a DESCRIPTIONSTATUS other than 0 as follows:
CODE, SCUI = CONCEPTID
SAUI = DESCRIPTIONID
STR = TERM
SUPPRESSIBLE=O

Note:  In SCTUSX_2012_09_01, all obsolete atoms are created from descriptions with a DESCRIPTIONSTATUS value of "5" or "8"
PT A PT (Preferred Term) atom is created for each line of sct1_Descriptions_en-US_US1000124_20120901.txt having DESCRIPTIONTYPE=1, DESCRIPTIONSTATUS=0 as follows:
CODE, SCUI = CONCEPTID
SAUI = DESCRIPTIONID
STR = TERM
SUPPRESSIBLE=N
Note:  PT atoms are removed from processing when their ancestors are present only in SNOMEDCT RF2 files.  They will be included in a future Metathesaurus release.
OP An OP (Obsolete Preferred term) atom is created for each line of sct1_Descriptions_en-US_US1000124_20120901.txt having DESCRIPTIONTYPE=1 and a DESCRIPTIONSTATUS other than 0, as follows:
CODE, SCUI = CONCEPTID
SAUI = DESCRIPTIONID
STR = TERM
SUPPRESSIBLE=O

Note:  In SCTUSX_2012_09_01, all obsolete atoms are created from descriptions with a DESCRIPTIONSTATUS value of "5" or "8"
SY An SY (Synonym) atom is created for each line of sct1_Descriptions_en-US_US1000124_20120901.txt having DESCRIPTIONTYPE=2, DESCRIPTIONSTATUS=0, as follows:
CODE, SCUI = CONCEPTID
SAUI = DESCRIPTIONID
STR = TERM
SUPPRESSIBLE=N
IS An IS (obsolete Synonym) atom is created for each line of sct1_Descriptions_en-US_US1000124_20120901.txt having DESCRIPTIONTYPE=2 and a DESCRIPTIONSTATUS other than 0, as follows:
CODE, SCUI = CONCEPTID
SAUI = DESCRIPTIONID
STR = TERM
SUPPRESSIBLE=O

Note:  In SCTUSX_2012_09_01, all obsolete atoms are created from descriptions with a DESCRIPTIONSTATUS value of "5" or "8"
SB
One SB (subset) atom is generated from der1_Subsets_en-US_US1000124_20120901.txt as follows:

CODE, SCUI = SUBSETID
STR = SUBSETNAME

Attributes (MRSAT)

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Attribute Name STYPE Origin
CONCEPTSTATUS SCUI CONCEPTSTATUS from sct1_Concepts_US1000124_20120901.txt
DESCRIPTIONSTATUS AUI DESCRIPTIONSTATUS from sct1_Descriptions_en-US_US1000124_20120901.txt
DESCRIPTIONTYPE AUI DESCRIPTIONTYPE from sct1_Descriptions_en-US_US1000124_20120901.txt
INITIALCAPITALSTATUS AUI INITIALCAPITALSTATUS from sct1_Descriptions_en-US_US1000124_20120901.txt
ISPRIMITIVE SCUI ISPRIMITIVE from sct1_Concepts_US1000124_20120901.txt
LANGUAGECODE AUI LANGUAGECODE from sct1_Descriptions_en-US_US1000124_20120901.txt
SUBSETLANGUAGECODE
AUI
LANGUAGECODE from der1_Subsets_en-US_US1000124_20120901.txt
SUBSETMEMBER
AUI
Has 3 components, separated by "~" characters: SUBSETID, MEMBERSTATUS, and LINKEDID, from der1_SubsetMembers_en-US_US1000124_20120901.txt
SUBSETORIGINALID
AUI
SUBSETORIGINALID fromder1_Subsets_en-US_US1000124_20120901.txt
SUBSETTYPE
AUI
SUBSETTYPE from der1_Subsets_en-US_US1000124_20120901.txt
SUBSETVERSION
AUI
SUBSETVERSION from der1_Subsets_en-US_US1000124_20120901.txt

Definitions (MRDEF)

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No definitions are provided for SCTUSX.

Relationships (MRREL)

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Note:  The SCTUSX hierarchy is designed as an extension to the SNOMEDCT hierarchy.  Due to complications in representing a mixed-source hierarchy, the SCTUSX hierarchy is not represented in MRHIER.RRF.

REL RELA/Inverse RELA ORIGIN
CHD
PAR
(blank) Hierarchical relationships are derived from rows of sct1_Relationships_US1000124_20120901.txt where RELATIONSHIPTYPE is 116680003 ("Is a").
RB
RN
RO
SY
 (many RELA values) These are derived from rows of sct1_Relationships_US1000124_20120901.txt where RELATIONSHIPTYPE is not 116680003 ("Is a"). The REL and RELA values used for each RELATIONSHIPTYPE are specified by SNOMEDCT UMLSREL and UMLSRELA attributes, respectively.

RELA="replaces/replaced_by" are created from sct1_References_US1000124_20120901.txt

Mappings (MRMAP)

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No mappings to external sources are included for SCTUSX.


History (MRHIST)

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All SCTUSX history data is extracted from sct1_ComponentHistory_US1000124_20120901.txt:

COLUMN
ORIGIN
SOURCEUI COMPONENTID
SVER
RELEASEVERSION
CHANGETYPE
CHANGETYPE
CHANGEKEY
DESCRIPTIONSTATUS if COMPONENTID is a DESCRIPTIONID
CONCEPTSTATUS if COMPONENTID is a CONCEPTID
CHANGEVAL
STATUS
REASON
REASON