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Unified Medical Language System® (UMLS®)

2014AA UMLS LOINC Source Information

This page lists UMLS Metathesaurus data elements and traces them back to the specific source data that populates them.


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

VSAB: LNC246

Summary of Changes:

1. All subsources have been deprecated. All data are now included under one SAB = LNC.

2. New 'LOINC_246_SELECTED_FORMS.xlsx' file received. This file contains information on panels and their members. New relationship created:
     RT | has_member / member_of

3. The hierarchy has been changed from SAUI-based to SCUI-based.

4. Source file formats have been changed from tab-delimited to csv delimited.


Original Files:

The UMLS uses files publically available at www.loinc.org, including:

  • loinc.csv (compressed in LOINC246.zip)
  • map_to.csv (compress in LOINC246.zip)
  • LOINC_246_MULTI-AXIAL_HIERARCHY.CSV
  • LOINC_246_SELECTED_FORMS.xlsx

In addition, the UMLS receives two files to facilitate building the hierarchy. For 2.46, these files were: "LOINC_PART_LINKS_V2-46_2013-12-26.txt" and "LOINC_PARTS_V2-46_2013-12-26.txt". Additional information, such as expansions of abbreviations, is extracted from LOINCManual.pdf.

Overview

Identifiers

LOINC Identifiers in the UMLS are generally based on field 1 of loinc.csv, or field 1 of LOINC_PARTS (L_PART_ID). For some termtypes, the atom may be associated with multiple LOINC entities. For example, a component may be a part of multiple fully-specified names. In these cases, the atom (e.g. a CN, or Official Component Name), is assigned an MTHU# during Metathesaurus source processing.

  • CODE:
    • For term types LC, LN, LO, MTH_LN, MTH_LO, OLC, OOSN, OSN: the LOINC _NUM (field 1) from loinc.csv
    • For term types LPDN, LPN: the L_PART_ID (field 1) from LOINC_PARTS_*.txt
    • For term types CN, MTH_CN, HC, HS, LS: an MTHU#, assigned during Metathesaurus source processing.
  • SAUI: Not Applicable
  • SCUI: Same as CODE for term types LC, LN, LO, LPDN, LPN, MTH_LN, MTH_LO, OLC, OOSN, OSN
  • SDUI: Not Applicable

Expansions

Expanded forms of certain atoms are created during Metathesaurus source processing by applying abbreviation expansions extracted from the LOINC Manual. In these cases, the expanded form is generally assigned the same identifier as its original form. Expansions may also include converting patterns such as "little e" or “super little b" to “e" or "^b" respectively.


Atoms

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TTY ORIGIN
CN Official component name:
CODE = MTHU#, assigned during Metathesaurus source processing; same as CODE for respective MTH_CN as applicable.
STR = loinc.csv field 2, subfield 1 (COMPONENT).
HC Hierarchical class:
CODE = MTHU#, assigned during Metathesaurus source processing (same as CODE for respective HS).
STR = expanded form of loinc.csv field 8 for CLASS or expanded form of loinc.csv field 16 for CLASSTYPE.
An additional HC atom, “LOINCCLASSTYPES,” is added during Metathesaurus source processing as a hierarchical placeholder.
HS Short or alternate version of hierarchical term:
CODE = MTHU#, assigned during Metathesaurus source processing (same as CODE for respective HC).
STR = value of loinc.csv field 8 for CLASS, or value of loinc.csv field 16 for CLASSTYPE.
LC Long common name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = loinc.csv field 35 (LONG_COMMON_NAME)
TTY = LC is assigned if field 13 (STATUS) is not = "DEPRECATED"
LN Official fully-specified name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = loinc.csv fields 2-7, concatenated with colons, i.e. F2:F3:F4:F5:F6:F7
TTY = LN is assigned if field 13 (STATUS) is not = "DEPRECATED"
LO Obsolete official fully specified name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = loinc.csv fields 2-7, concatenated with colons, i.e. F2:F3:F4:F5:F6:F7
TTY = LO is assigned if field 13 (STATUS) = "DEPRECATED"
SUPPRESS = "O"
LPDN Parts display name:
CODE = LOINC_PARTS_*.txt field 1 (L_PART_ID)
STR = LOINC_PARTS_*.txt field 4 (DISPLAY_NAME)
LPDN atoms are only created for strings containing the pattern “Allergen Mix.”
LPN Parts name:
CODE = LOINC_PARTS_*.txt field 1 (L_PART_ID)
STR = LOINC_PARTS_*.txt field 3 (NAME_CASE_INSENSITIVE)
An additional LPN, “LOINCPARTS,” is added during Metathesaurus source processing as a hierarchical placeholder.
LS Expanded system/sample type:
CODE = MTHU#, assigned during Metathesaurus source processing
STR = Expanded form of loinc.csv field 5, subfield 1 (SYSTEM).
MTH_CN Component, with abbreviations expanded:
CODE = MTHU#, assigned during Metathesaurus source processing; same as CODE for respective CN as applicable.
STR = Expanded form of loinc.csv field 2, subfield 1 (COMPONENT).
MTH_LN Official fully specified name with expanded abbreviations:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = Expanded form of loinc.csv fields 2-7, concatenated with colons, i.e. F2:F3:F4:F5:F6:F7
TTY = MTH_LN is assigned if field 13 (STATUS) is not = “DEPRECATED”
MTH_LO Expanded obsolete fully specified name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = Expanded form of loinc.csv fields 2-7, concatenated with colons, i.e. F2:F3:F4:F5:F6:F7
TTY = MTH_LO is assigned if field 13 (STATUS) = "DEPRECATED"
SUPPRESS = O
OLC Obsolete long common name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = loinc.csv field 35 (LONG_COMMON_NAME)
TTY = OLC is assigned if field 13 (STATUS) = "DEPRECATED"
SUPPRESS = O
OOSN Obsolete official short name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = loinc.csv field 29 (SHORTNAME)
TTY = OOSN is assigned if field 13 (STATUS) = "DEPRECATED"
SUPPRESS = "O"
OSN Official short name:
CODE = loinc.csv field 1 (LOINC_NUM)
STR = loinc.csv field 29 (SHORTNAME)
TTY OSN is assigned if field 13 (STATUS) is not = “DEPRECATED”
XM Cross-mapping set:
This data is added during Metathesaurus source processing

Attributes

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ATN [Description] Origin
COPYRIGHT loinc.csv field 33 (EXTERNAL_COPYRIGHT_NOTICE)
CHANGE_REASON_PUBLIC
loinc.csv field 44
COMMON_SI_TEST_RANK
loinc.csv field 47
COMMON_TEST_RANK
loinc.csv field 45
COMMON_ORDER_RANK
loinc.csv field 46
CONSUMER_NAME
loinc.csv field 14
CURATED_RANGE_AND_UNITS loinc.csv field 38
DOCUMENT_SECTION loinc.csv field 39
EXAMPLE_UCUM_UNITS loinc.csv field 40
EXAMPLE_UNITS loinc.csv field 34
FROMRSAB This data is added during Metathesaurus source processing
FROMVSAB This data is added during Metathesaurus source processing
HL7_ATTACHMENT_STRUCTURE loinc.csv field 48
HL7_FIELD_SUBFIELD_ID loinc.csv field 32
HL7_V2_DATATYPE loinc.csv field 36
HL7_V3_DATATYPE loinc.csv field 37
LCA [ACSSYM] loinc.csv field 20 (ACSSYM)
LCB [Chemical base name] loinc.csv field 21 (BASE_NAME)
LCD [CDISC common tests] loinc.csv field 31 (CDISC_COMMON_TESTS)
LCL [Class] loinc.csv field 8 (CLASS)
LCN [Classtype] loinc.csv field 16 (CLASSTYPE)
LCS [Status] loinc.csv field 13 (STATUS)
LCT [Change type] loinc.csv field 11 (CHNG_TYPE)
LEA [Example answers] loinc.csv field 19 (EXMPL_ANSWERS)
LFO [Formula] loinc.csv field 17 (FORMULA)
LLR [Date last revised] loinc.csv field 10 (DATE_LAST_CHANGED)
LMM [Molecular weights] loinc.csv field 15 (MOLAR_MASS)
LMP [MAP TO code] map_to.csv field 2 (MAP TO)
LNC [NAACCR ID] loinc.csv field 22 (NAACCR_ID)
LNE [Code table] loinc.csv field 23 (CODE_TABLE)
LOINC_COMPONENT loinc.csv field 2 (all subfields)
LOINC_METHOD_TYP loinc.csv field 7
LOINC_PROPERTY loinc.csv field 3
LOINC_SCALE_TYP loinc.csv field 6
LOINC_SYSTEM loinc.csv field 5
LOINC_TIME_ASPECT loinc.csv field 4
LOR [Order/observation] loinc.csv field 30 (ORDER_OBS)
LQS [Survey question source] loinc.csv field 25 (SURVEY_QUEST_SRC)
LQT [Survey question text] loinc.csv field 24 (SURVEY_QUEST_TXT)
LRN2 [Related names 2] loinc.csv field 28 (RELATEDNAMES2)
LSP [Species] loinc.csv field 18 (SPECIES)
LSU [Submitted units] loinc.csv field 27 (SUBMITTED_UNITS)
LUR [Units required] loinc.csv field 26 (UNITS_REQUIRED)
MAPSETRSAB This data is added during Metathesaurus source processing
MAPSETTYPE This data is added only if the information is provided by the source
MAPSETVERSION This data is added during Metathesaurus source processing
MAPSETVSAB This data is added during Metathesaurus source processing
MTH_MAPFROMCOMPLEXITY This data is added during Metathesaurus source processing
MTH_MAPFROMEXHAUSTIVE This data is added during Metathesaurus source processing
MTH_MAPSETCOMPLEXITY This data is added during Metathesaurus source processing
MTH_MAPTOCOMPLEXITY This data is added during Metathesaurus source processing
MTH_MAPTOEXHAUSTIVE This data is added during Metathesaurus source processing
SOS loinc.csv field 12 (COMMENTS)
LOINC_PARTS field 4 (DISPLAY_NAME)
STATUS_REASON
loinc.csv field 42
STATUS_TEXT
loinc.csv field 43
TORSAB This data is added during Metathesaurus source processing
TOVSAB This data is added during Metathesaurus source processing
XMAP This data is added during Metathesaurus source processing
XMAPFROM This data is added during Metathesaurus source processing
XMAPTO This data is added during Metathesaurus source processing

Definitions

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There are no text definitions.


Relationships

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REL RELA
inverse_RELA
Origin
CHD
PAR
SIB

The hierarchy is extracted from:
  • loinc.csv, field 8 (CLASS) and field 16 (CLASSTYPE)
  • LOINC_246_MULTI-AXIAL_HIERARCHY.CSV
RO analyzed_by
analyzes
Connects LS to LN or LO
RO associated_with Connects CN to LO or LN with CLASSTYPE of 3 (Claims Attachment).
RO has_adjustment
adjustment_of
Connects LPN where PART_TYPE = "ADJUSTMENT" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_challenge
challenge_of
Connects LPN where PART_TYPE = "CHALLENGE" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_class
class_of
Connects LPN where PART_TYPE = "CLASS" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_component
component_of
Connects LPN where PART_TYPE = "COMPONENT" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_divisor
divisor_of
Connects LPN where PART_TYPE = "DIVISORS" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_evaluation
evaluation_of
Connects CN to LO or LN with CLASSTYPE of 4 (Surveys).
RO has_fragments_for_synonyms
fragments_for_synonyms_of
Connects LPN where PART_TYPE = "FRAGMENTS FOR SYNONYMS" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_method
method_of
Connects LPN with PART_TYPE = "METHOD" with LOINC CODE indicated in LOINC_PART_LINKS_*.txt
RO has_multipart
multipart_of
Connects PART_TYPE = "MULTIPART" with LOINC CODE indicated in LOINC_PART_LINKS_*.txt
RO has_property
property_of
Connects LPN where PART_TYPE = "PROPERTY" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_quotient
quotient_of
Connects PART_TYPE = "QUOTIENTS" with LOINC CODE indicated in LOINC_PART_LINKS_*.txt
RO has_scale
scale_of
Connects LPN where PART_TYPE = "SCALE" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_suffix
suffix_of
Connects LPN where PART_TYPE = "SUFFIX" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_supersystem
supersystem_of
Connects LPN where PART_TYPE = "SUPER SYSTEM" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_system
system_of
Connects LPN where PART_TYPE = "SYSTEM" with LN or LO, as per LOINC_PART_LINKS_*.txt
RO has_time_aspect
has_time_aspect
Connects LPN where PART_TYPE = "TIME" with LN, as per LOINC_PART_LINKS_*.txt
RO has_time_modifier
time_modifier_of
Connects LPN where PART_TYPE = "TIME MODIFIER" with LN, as per LOINC_PART_LINKS_*.txt
RO measured_by
measures
Connects CN to LO or MTH_LN with CLASSTYPE of 1 (Laboratory) or 2 (Clinical).
RQ mapped_from
mapped_to
Connects an LO with an LN, indicating possible synonymy between a current code and a retired code, as per loinc.csv field 13 (STATUS) and map_to.csv
SY common_name_of
has_common_name
Connects an LN or LO with its LC or OLC respectively
SY expanded_form_of
has_expanded_form
Connects original and expanded forms of atoms, including: HS <--> HC; OSN <--> LN; OOSN <--> LO
SY
mth_expanded_form_of
mth_has_expanded_form
Connects original and expanded forms of atoms, including: CN <--> MTH_CN; LN <--> MTH_LN; LO <--> MTH_LO

Mappings

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The Metathesaurus includes mappings between LOINC 2.15 and CPT2005.