LOINC
Version 2.71

95424-8SARS-CoV-2 (COVID-19) RNA [Presence] in Respiratory specimen by SequencingActive

Term Description

Qualitative detection of nucleic acid from SARS coronavirus 2 (SARS-CoV-2) in respiratory specimens by sequencing methods, such as next generation sequencing (NGS), also known as high-throughput sequencing (HTS). Testing is performed for the diagnosis of COVID-19.
Source: Regenstrief LOINC

Part Descriptions

LP417540-4   SARS coronavirus 2
The 2019 Novel Coronavirus (2019-nCoV) is a coronavirus first identified as the cause of a respiratory illness outbreak in Wuhan, China. Initially, the outbreak was linked to a large seafood and animal market and thought to only be spread by animal to person contact. Within a short time, a growing number of patients who had not been exposed to animal markets were diagnosed with the infection, indicating person-to-person transmission. As of January 2020, infections with 2019-nCoV have been reported internationally, including Thailand and the United States, in due to confirmed cases in travelers from Wuhan. Overall, clinical symptoms appear milder than SARS Coronavirus (SARS-CoV) and Middle East Respiratory Syndrome (MERS) Coronavirus (MERS-CoV) infections as do the fatality rate and transmissibility.[PMID:31953166] Reported illnesses have ranged from minor or no respiratory symptoms to severe acute respiratory illness and death.

The full genome of the 2019-nCoV was first posted by Chinese health authorities in GenBank, the NIH genetic sequence database, and in the Global Initiative on Sharing All Influenza Data (GISAI) portal. This facilitated detection of the virus globally with subsequent sequences being nearly identical, suggesting a single, recent emergence from a virus related to bat coronaviruses and the SARS coronavirus. Real time Reverse Transcription-Polymerase Chain Reaction (rRT-PCR) tests have been developed by the Centers for Disease Control and Prevention (CDC) and others for the diagnosis of 2019-nCoV. The existing 2019-nCoV primer and probe sets are designed for the universal detection of SARS-like coronaviruses and for specific detection of 2019-nCoV.[CDC:coronavirus/2019-ncov] Source: LOINC

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 RNA
Property
PrThr
Time
Pt
System
Respiratory
Scale
Ord
Method
Sequencing

Additional Names

Short Name
SARS-CoV-2 RNA Resp Ql Seq
Display Name
SARS-CoV-2 (COVID-19) RNA Sequencing Ql (Resp)
Consumer Name Alpha
SARS-CoV-2 (COVID-19), Respiratory

Example Answer List LL3250-9

Source: Association of Public Health Laboratories

Answer Code Score Answer ID
Detected LA11882-0
Not detected LA11883-8
Inconclusive Copyright http://snomed.info/sct ID:419984006 Inconclusive (qualifier value) LA9663-1
Specimen unsatisfactory for evaluation Copyright http://snomed.info/sct ID:125154007 Specimen unsatisfactory for evaluation (finding) LA13548-5

Basic Attributes

Class
MICRO
Type
Laboratory
First Released
Version 2.69
Last Updated
Version 2.69
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 Groups

LG50983-2 SARS coronavirus 2 RNA|PrThr|Sys:ANYResp
LG51017-8 SARSCoV2 detection
LG51019-4 SARSCoV2 molecular detection

Language Variants Get Info

zh-CNChinese (China)
SARS 冠状病毒 2 RNA:存在情况或阈值:时间点:呼吸道:序数型:序列测定
nl-NLDutch (Netherlands)
SARS-CoV-2 RNA:aanwezigheid:moment:luchtwegen:ordinaal:sequencing
fr-CAFrench (Canada)
coronavirus 2 du SRAS , ARN:Présence-Seuil:Temps ponctuel:Respiratoire:Ordinal:Séquençage
fr-FRFrench (France)
Coronavirus SARS-CoV-2 ARN:Présence/Seuil:Ponctuel:Respiratoire:Qualitatif:Séquençage
it-ITItalian (Italy)
SARS coronavirus 2 RNA:PrThr:Pt:Respiratorio:Ord:Sequenziamento
es-ESSpanish (Spain)
Panel del SARS-CoV-2 (COVID-19) RNA:PrThr:Punto temporal:Respiratorio:Ord:Secuenciación

LOINC FHIR® API Example - CodeSystem Request Get Info

https://fhir.loinc.org/CodeSystem/$lookup?system=http://loinc.org&code=95424-8