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Introduction to LOINC
The global vocabulary for identifying health measurements, observations, and documents
Swapna Abhyankar, MD
Associate Director for Content Development,
LOINC and Health Data Standards
Regenstrief Center for Biomedical Informatics
@sa_abhyankar
2017
High Level Schedule
1. An overview of LOINC
2. The LOINC Concept Model and
other Data Structures
3. Implementing LOINC
Laboratory professional
Physician
Nurse
Other health professional
Just love working with Health IT / data
What do you want to learn about
LOINC?
https://danielvreeman.com/poll
Data exchange
Analytics or quality metrics
App design or decision support
Research
Other
Interoperability
The ability of health IT to communicate, exchange data,
and use the information that has been exchanged.
Health history
Patient-generated
EHR
Genetics
Basic science
photo via Heather | cc-by-sa
The rain forest canopy is a
seamless web through which
arboreal creatures efficiently
move to reach the edible
fruits without any attention
to the individual trees.
McDonald et al. Canopy Computing: using the Web in Clinical Practice. JAMA. 1998;280(15):1325-1329. photo via nosha | cc-by-sa
Reality:
patients move faster and further
than their health information
https://ec.europa.eu/digital-single-market/en/news/ehealth-action-plan-2012-2020-innovative-healthcare-21st-century
Certification to require information be
accessed, exchanged and used
without special effort through
technologies such as open application
programming interfaces (API).
https://www.gsma.com/iot/wp-content/uploads/2016/10/Interoperability-report-v1.2.pdf
Why is
interoperability
in so hard?
MO MONEY MO PROBLEMS
data
It's like, the more money
we come across
The more problems we see
MO DATA MO PROBLEMS
Problems
Health IT systems often lack
common mechanisms for MO DATA MO PROBLEMS
exchanging data.
Semantic Standards
Vocabulary/code systems
LOINC, SNOMED CT, RxNorm, ATC, ICD, etc
LOINCs superhero
origin story
McDonald et al. Canopy Computing: using the Web in Clinical Practice. JAMA. 1998;280(15):1325-1329.
Logical Observation Identifiers Names and Codes
75547-0 Noninvasive prenatal fetal aneuploidy 75296-4 Carbohydrate intake 24 hour Estimated
and microdeletion panel based on Plasma cell- 82289-0 Rating of perceived exertion [Score]
free+WBC DNA by Dosage of chromosome-specific
circulating cell free (ccf) DNA 72166-2 Tobacco smoking status NHIS
70,000
60,000
50,000
40,000
30,000
20,000
laboratory terms only
10,000
0
There will come a time when you believe
everything is finished.
Louis LAmour
novelist
from Lonely on the Mountain
Units
Same thing, different format
Using Hl7 FHIR + LOINC
Coded Result Values
Using Hl7 version 2.x + LOINC + SNOMED CT
OBX||NM|123^RBC^MyHosp^26453-1^RBC # Bld^LN||4.82|10*6/uL
https://www.legifrance.gouv.fr/affichTexte.do?cidTexte=JORFTEXT000031922237&categorieLien=id
http://esante.gouv.fr/sites/default/files/CI-SIS_CONTENU_VOLET-CR-BIOLOGIE_v1.2.0.0.pdf
Open-source LIMS in
Vietnam
Implemented at 38 hospital, public health,
and HIV testing laboratories in Vietnam.
Seerainer C, Sabutsch SW. eHealth Terminology Management in Austria. Stud Health Technol Inform. 2016;228:426-30. PubMed PMID: 27577418.
Nictiz: Netherlands
Many national projects in the
Netherlands are using LOINC
http://www.cchi.gov.sa/en/Projects/SHIP/Pages/Dictionary.aspx
International Patient
Summary (IPS)
A non-exhaustive patient summary, specialty-
agnostic, condition-independent, but readily
usable by clinicians for the cross-border
unscheduled care of a patient.
http://international-patient-summary.net
St. Petersburg Medical
Information Analytical Center
Large regional health data exchange
~300 organizations, 85 labs
Kopanitsa G. Application of a Regenstrief RELMA V.6.6 to Map Russian Laboratory Terms to LOINC. Methods Inf Med. 2016;55(2):177-81. Epub 2015 Dec 15. PubMed PMID: 26666563.
http://www.iksmedia.ru/articles/5434116-Prakticheskaya-polza-informatizacii.html
India Ministry of Health
and Family Welfare
https://www.nhp.gov.in/NHPfiles/EHR-Standards-2016-MoHFW.pdf
Ministrio da Sade Brasil
http://bvsms.saude.gov.br/bvs/saudelegis/gm/2011/prt2073_31_08_2011.html
Saudi Arabia s Council of
Cooperative Health Insurance
http://www.cchi.gov.sa/en/Projects/SHIP/Pages/Dictionary.aspx
Turkish Ministry of
Health
http://www.cchi.gov.sa/en/Projects/SHIP/Pages/Dictionary.aspx
And so many more
FDA
Requiring LOINC for lab test data in studies starting after March 2020
Broad vision towards using real-world evidence in post market surveillance
CDC
Longtime users of LOINC: electronic lab reporting, case reporting, immunization messaging, National
EMS Info System, National Trauma Data Standards, etc
CMS
Under Impact Act 2014, all CMS-required patient assessment instruments are standardized in LOINC
https://www.fda.gov/forindustry/datastandards/studydatastandards/default.htm
https://www.healthit.gov/isa
https://www.fda.gov/ScienceResearch/SpecialTopics/RealWorldEvidence/default.htm
Lots o LOINC
Representing Patient Allergic Reactions Representing Patient-Identified Sexual
Representing Patient Family Health History Orientation
Representing Patient Functional Status and/ Social Determinants
or Disability Representing Financial Resource
Representing Imaging Diagnostics, Strain
Interventions and Procedures Representing Level of Education
Representing Laboratory Tests Representing Stress
Nursing Representing Depression
Representing Nursing Assessments Representing Physical Activity
Representing Nursing Interventions Representing Alcohol Use
Representing Outcomes for Nursing Representing Social Connection and
Representing Patient Clinical Isolation
Problems (i.e., Conditions) Representing Exposure to Violence
Sex at Birth, Sexual Orientation and (Intimate Partner Violence)
Gender Identity Representing Patient Tobacco Use (Smoking
Representing Patient Gender Identity Status)
Representing Patient Sex (At Birth) Representing Patient Vital Signs
Large-scale observational research
networks have adopted LOINC:
PCORnet
Swapna Abhyankar, MD
The LOINC concept model and other data
structures
&
LOINC Content Domains
S u n d a y, N o v e m b e r 5 , 2 0 1 7
Swapna Abhyankar, MD
Associate Director for Content Development
Part 2 overview
LOINC concept model
Other LOINC data structures and ancillary data
LOINC content domains
Domain specializations
Query design
Q&A
Anatomy of a LOINC term
The LOINC code
Unique, permanent numeric code
Sequential
LOINC code value can help determine when code was created
No intrinsic structure except last character is a mod 10-check digit
Once released, a code is never removed from the LOINC database
Six main Parts
Part name Description
Component The analyte being measured
Property The dimension of the analyte that is being measured
Time aspect Whether the analyte is measured at a moment in time or over a specific
period of time
System The type of sample
Scale A general classification of the result type, whether
quantitative, qualitative, narrative, etc.
Method How the analyte was measured
*The Method is the only major axis that does not have to be populated for
every LOINC term
Component
Definition: the analyte that is being measured
Examples:
Sodium
HIV 1 p24 antigen
Body weight
Diameter.end diastole
Bispectral index
Note
Cytology report
Component subparts
Challenge: a chemical or physiologic stimulus given to a patient before
the analyte is measured (also called a loading or tolerance test)
Examples:
2H post 100 g glucose PO
post exercise
st nd
1 specimen/2 specimen
Adjustment: correction of a measured value
Examples:
adjusted to pH 7.4
corrected for nucleated erythrocytes
Sequence when reporting multiple results (rarely used)
Property
Definition: the dimension of the analyte that is being measured
Examples:
Mass concentration
Titer
Presence or Threshold
Length
Angle
Location
Date
Time aspect
Definition: whether the analyte is measured at a moment in time or over
a specific period of time
Examples:
Point in time
24 hours
7 days
1 year
Study maximum
Reporting period
Lifetime
System
Definition: the type of sample
Examples:
Blood
Serum or Plasma
Urine
Synovial fluid
Mitral valve
Elbow
Device
Super System
Definition: the source of the sample if the source is not the patient
Examples:
^Fetus
^Mother
^Father
^Family member
^Guardian or legally authorized representative
^BPU (blood product unit)
^Donor
Scale
Definition: a general classification of the result type
Examples:
Quantitative
Ordinal (qualitative, can be ordered)
Nominal (qualitative, cannot be ordered)
Narrative
Document
Method
Definition: how the analyte was measured or the information was obtained
Examples:
null (no method specified)
Immunoassay
Sequencing
Invasive
X-ray
MRI
Reported
Observed
Putting the parts together
Component Property Time aspect System Scale Method
Chngtype How the term changed in the version ADD, DEL, UND, NAM
last changed
Description Information at both the Part and Stroke volume is the volume of blood pumped from one
term level ventricle of the heart during a single beat. It is the difference
between the volume at the end of diastole, at which point
the ventricle is done filling and is at its maximum volume
(also known as maximum end-diastolic volume), and the end
of systole, at which point the ventricle has finished pumping
but has not yet started filling (also known as minimum end-
systolic volume).
Examples of LOINC terms + attributes
LOINC Panels
What is a panel in LOINC?
A collector term that contains an enumerated set of
discrete child elements
Panel attributes
Panel terms usually have panel in the Component, and will have a
dash as the value for Parts whose values may vary across the child
elements
Property
Method
Panel structure includes the following fields for its child elements:
Conditionality - denotes whether or not it should be present in the panel when
resulted.
Example values: Required (R), Optional (O), or Conditional (C)
Cardinality the minimum and maximum number of times a question or
answer may be repeated
Override name
Observation ID in form
Skip logic
Where to get LOINC panels
LOINC detail pages in RELMA and http://search.loinc.org
Show the panel structure, including conditionality, cardinality, etc.
Panels and forms file (https://loinc.org/downloads/accessory-
files/)
Contains the full panel structure for all panels in LOINC
RELMA Export full panel structure
Export a single panel with all of its attributes from RELMA
Examples of panels
LOINC Content Domains
LOINC Content Types
Type Name Description
1 Laboratory Concepts from a variety of laboratory domains
Examples
View descriptor view, multisection
Aggregation 2, greater than 3
View type AP, lateral, oblique
Guidance
Guidance for <Approach> <Action> of <Object>
Examples
Approach percutaneous, deep
Action aspiration, placement, drainage
Object cyst, catheter, abscess
Reason for exam
Indication or purpose of study
Examples
for shunt patency, for vertebral fracture
Timing
<Timing>
Used with both maneuver and
pharmaceutical
Examples
Timing W, WO, WO & W
Maneuver
<Timing> <Maneuver>
Examples
Maneuver type flexion, extension, standing
Pharmaceutical
<Timing> <Pharmaceutical> <Route>
Examples
Pharmaceutical contrast, 18-F FDG
Route IV, PO, via nephrostomy tube,
intra fistula
Anatomy
<Region imaged> > <Imaging focus>
laterality attached as appropriate
Examples
Region imaged head, chest, abdomen, lower extremity
Imaging focus brain, clavicle, liver, thigh, ankle
Laterality.Presence true, false
Laterality right, left, bilateral, unspecified
Subject
Examples
fetus, surgical specimen
Modality
<Modality>.<Modality subtype>
Examples
Modality XR, CT, MR, NM,
US, PT, MG, RF
Modality subtype angio, densitometry,
spectroscopy, tomography
Relationship of unified model to LOINC and
Playbook concepts
Unified
LOINC model
RadLex
LOINC non- attributes RadLex
Playbook
term radiology (LOINC attributes
concept
parts radiology
parts)
Cross-mapping between LOINC radiology
and non-radiology parts
LOINC non-radiology part Unified model attribute (LOINC radiology part)
Component 1st part View
Guidance
Reason for exam
Component 2nd part (challenge) Timing + Maneuver
Timing + Pharmaceutical
System Anatomy (Region imaged, Imaging focus, Laterality)
Subject
Method Modality
Examples
Phew! You made it!
Now youre ready to do
some LOINCing!
LOINC Query Design
Tools
RELMA
http://search.loinc.org
Search based on
LOINC 6-part concept model
Other attributes
Search syntax
AND (implied)
OR
*
{Attribute}:
Query #1
How do I find all radiology codes added in the latest version of
LOINC?
class:rad
versionlastchanged:2.61
chngtype:add
Query #2
How do I find all radiology codes that are mapped to RadLex
Core Playbook codes?
Relatedcodes:rpid*
Query #3
How do I find all radiology codes that are mapped to RadLex
Core Playbook MR or CT codes?
Relatedcodes:rpid* Method:(CT or MR)
Query #4
How do I find all microbiology codes that were added in the last
version?
Class:micro
versionlastchanged:2.61
chngtype:add
Note if you dont include class: your search will return terms
with the Method of Microscopy as well as any terms with micro
in the Component
Query #5
How do I find all codes that were deprecated in the latest
version?
versionlastchanged:2.61
chngtype:del
Query #6
How do I find all terms asking about anxiety that have an
answer list?
Component:anxiety
Answerlist:true
Alternatively:
Component:glucose panel
LOINC Groups (https://loinc.org/groups/)
A flexible, extensible, and computable tool for rolling up groups of LOINC codes
Use cases:
Aggregating data for displaying on a flowsheet
Retrieving data for quality measure reporting
Collecting data for research
Use with caution
The distributed LOINC Group file is a work in progress. Expect the contents of this file,
including the types of Groups that are included, to change from release to release as we
receive feedback from users and refine our processes.
The contents of the file and the groupings MUST be validated by the user prior to
implementation in any aspect of clinical care.
Groups example #1
Groups example #2
Content creation and
maintenance
Ways to submit to LOINC
RELMA
Directly through the web or by email
to submissions@loinc.org
Two ways
Context menu
Hit the View Details button
Choose Format
Choose Stuff
Oh no, roadblock
Cant install RELMA
ACnc
MoM
MFr
MCnc
Which LOINC term is best match for
Systolic Blood Pressure?
https://danielvreeman.com/poll
https://danielvreeman.com/poll
79717-5 CYP3A5 gene product metabolic activity interpretation in
Blood or Tissue Qualitative by CPIC
72697-6 CYP3A5 gene c.6986A>G(*3) [Presence] in Blood or
Tissue by Molecular genetics method
81139-8 CYP3A4 gene mutations found [Identifier] in Blood or
Tissue by Molecular genetics method Nominal
81140-6 CYP3A5 gene mutations found [Identifier] in Blood or
Tissue by Molecular genetics method Nominal
Which LOINC term is best match for the test
JAK2 V617F Mutation Analysis, Quantitative (%)?
https://danielvreeman.com/poll
Takes as input
Local test codes, names, units, and mappings
Returns
Spreadsheet with issues detected by the evaluation process
Sample of Evaluation Rules
Unknown local units
Deprecated LOINC
Discouraged LOINC
Property/units mismatch
Scale/units mismatch
Concentration missing denominator
A small sample of
LOINC-powered
informatics
innovations
Hall PL, Marquardt G, McHugh DM, et al. Postanalytical tools improve performance of newborn screening by tandem mass spectrometry. Genet Med. 2014 Dec;
16(12):889-95. Epub 2014 May 29. PubMed PMID: 24875301.
Do you have an iPhone?
80%
70%
50%
40%
30%
10%
0%
0
500
1000
1500
2000
2500
3000
3500
4000
Not all variables will have a LOINC Number of Laboratory Observation Codes (N)
Vreeman DJ, Finnell JT, Overhage JM. A rationale for parsimonious laboratory term mapping by frequency. AMIA Annu Symp Proc. 2007 Oct 11:771-5. PMID:
18693941.
Tip 2: Go upstream
Let all the downstream data recipients benefit
photo via Fishking_1 | cc-by
Reference
laboratories have
all mapped their
tests to LOINC
https://ivdconnectivity.org/livd
Tip 3: Dont make
assumptions
photo via tgerus | cc-by-sa
Ambiguous test names are the norm
Go Premium
curl -O ftps://[username]:[pwd]@loinc.regenstrief.org:990/currentversion.zip
Review commentary
danielvreeman.com/tips
Chinese translation available
Happy LOINCing!