LOINC
Version 2.73

96741-4SARS-CoV-2 (COVID-19) variant [Type] in Specimen by SequencingActive

Term Description

For reporting the SARS-CoV-2 variant strain identified, various codes are available in LOINC depending on the nomenclature used. For the most general code (nomenclature unspecified), use SARS-CoV-2 (COVID-19) variant [Type] in specimen by sequencing (this term) or by nucleic acid amplification (NAA) with probe-based detection [LOINC:TBD]. To report the lineage for the variant, use SARS-CoV-2 (COVID-19) lineage [Type] in Specimen [LOINC:96895-8] (method unspecified). To report the clade for the variant, use SARS-CoV-2 (COVID-19) clade [Type] in Specimen [LOINC:96896-6] (method unspecified).
Source: Regenstrief LOINC

Part Description

LP150045-5   Sequencing
Sequencing is a method used to determine the sequence of individual genes, larger genetic regions (i.e. clusters of genes or operons), full chromosomes or entire genomes. Historically, most sequencing has been performed using the chain termination method developed by Frederick Sanger in 1977.[PMID:271968] Sequencing technologies have improved dramatically, making them cheaper, faster, and more accurate. Next-generation sequencing (NGS), also known as high-throughput sequencing, deep sequencing, and second-generation sequencing, is a type of technology that uses parallel sequencing of multiple small fragments of DNA to determine sequence. This "high-throughput" technology has increased the speed and amount of DNA sequenced at a significantly reduced cost.[PMID:18576944] Several NGS platforms (ie, sequencing instruments and associated reagents) have been developed. Third-generation sequencing is another methodology currently under development that uses parallel sequencing similar to NGS. In contrast to NGS, third-generation sequencing uses single DNA molecules rather than amplified DNA as a template.[PMID:20858600] Source: Regenstrief LOINC

Fully-Specified Name

Component
SARS coronavirus 2 variant
Property
Type
Time
Pt
System
XXX
Scale
Nom
Method
Sequencing

Additional Names

Short Name
SARS-CoV-2 variant Spec Seq
Display Name
SARS-CoV-2 (COVID-19) variant Sequencing Nom (Specimen)
Consumer Name Alpha
SARS-CoV-2 (COVID-19) variant, Specimen

Example Answer List LL5768-8

Source: World Health Organization (WHO)

Answer Code Score Answer ID
SARS-CoV-2 Alpha variant (WHO)

Also known as B.1.1.7, 20I/501Y.V1, VOC - 202012/01, and UK variant

LA31569-9
SARS-CoV-2 Beta variant (WHO)

Also known as B.1.351, 501Y.V2, and South Africa variant

LA31570-7
SARS-CoV-2 Gamma variant (WHO)

Also known as P.1 lineage, 501Y.V3, and 20J/501Y.V3

LA31621-8
SARS-CoV-2 Delta variant (WHO)

Also known as G/478K.V1, Nextstrain clade 21A, and B.1.617.2 lineage

LA32552-4
SARS-CoV-2 Omicron variant (WHO)

Also known as B.1.1.529

LA33381-7

Basic Attributes

Class
MICRO
Type
Laboratory
First Released
Version 2.70
Last Updated
Version 2.72
Order vs. Observation
Both

Reference Information

Type Source Reference
Webcontent Lab Tests Online®Copyright Copyright © 2021 Lab Tests Online. All rights reserved. Coronavirus (COVID-19) Testing

Member of these Panels

LOINC Long Common Name
96894-1 SARS-CoV-2 (COVID-19) sequencing and identification panel - Specimen by Molecular genetics method

Member of these Groups

LG51017-8 SARSCoV2 detection
LG51019-4 SARSCoV2 molecular detection

Language Variants Get Info

zh-CNChinese (China)
SARS 冠状病毒 2 变异:类型:时间点:XXX:名义型:序列测定
nl-NLDutch (Netherlands)
SARS-CoV-2-variant:type:moment:XXX:nominaal:sequencing
fr-CAFrench (Canada)
Variant du coronavirus 2 du SRAS:Type:Temps ponctuel:XXX:Nominal:Séquençage
de-DEGerman (Germany)
SARS-Coronavirus 2-Variante:Typ:Zeitpunkt:XXX:Nominal:Sequenzierung
it-ITItalian (Italy)
SARS coronavirus 2, variante:Tipo:Pt:XXX:Nom:Sequenziamento
pl-PLPolish (Poland)
wariant SARS-CoV-2:Typ:Punkt w czasie:XXX:Nominalny:Sekwencjonowanie
es-MXSpanish (Mexico)
Variante del coronavirus 2 del SARS:Escribe:Punto temporal:No especificado:Nominal:Secuenciación
es-ESSpanish (Spain)
Variante del SARS-CoV-2 (COVID-19):Tipo:Punto temporal:XXX:Nom:Secuenciación

LOINC FHIR® API Example - CodeSystem Request Get Info

https://fhir.loinc.org/CodeSystem/$lookup?system=http://loinc.org&code=96741-4