LOINC
Version 2.72

94822-4SARS-CoV-2 (COVID-19) RNA [Presence] in Saliva (oral fluid) by SequencingActive

Term Description

Qualitative detection of nucleic acid from the SARS coronavirus 2 (SARS-CoV-2) in saliva 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 had been reported internationally 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 range 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. Source: LOINC

LP7565-7   Saliva
Saliva is produced primarily by the parotid, submaxillary, and sublingual glands. It is secreted at the rate of 0-3 milliliters per minute which is affected by various factors including anxiety, hydration and hunger. Oral fluid is broadly used to test for drugs of abuse in employment and forensic settings, and is especially useful since it is difficult to adulterate, is quick and is non-invasive. Oral fluid is used to test a variety of analytes, including to test alcohol, HIV and other antibodies, therapeutic drugs and steroids, but its primary use is to test for drugs of abuse including amphetamines, cocaine and metabolites, opioids, methadone, cannabis and heroin.[PMID:17268583] Source: Regenstrief 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
Saliva
Scale
Ord
Method
Sequencing

Additional Names

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

Ask At Order Entry

This panel contains a convenience grouping of terms for questions commonly asked when an order is placed in a public health laboratory.

LOINC Name R/O/C Cardinality Example UCUM Units
81959-9 Public health laboratory ask at order entry panel
Indent81744-5 Submitter's laboratory test method [Type] in Specimen
Indent81658-7 Suspected organism [Identifier] in Specimen
Indent86952-9 Preliminary testing done Specimen
Indent86953-7 Preliminary testing result Specimen
Indent86955-2 Preliminary testing affected submission for further testing Specimen
Indent95417-2 Whether this is the patient's first test for condition of interest
Indent95418-0 Whether patient is employed in a healthcare setting
Indent95419-8 Whether the patient has symptoms related to condition of interest
Indent11368-8 Illness or injury onset date and time C
Indent77974-4 Whether the patient was hospitalized for condition of interest
Indent95420-6 Whether the patient was admitted to intensive care unit (ICU) for condition of interest
Indent95421-4 Whether patient resides in a congregate care setting
Indent82810-3 Pregnancy status C
Indent30525-0 Age a

Example Answer List LL2021-5

Source: Gen-Probe

Answer Code Score Answer ID
Positive Copyright http://snomed.info/sct ID:10828004 Positive (qualifier value) LA6576-8
Negative Copyright http://snomed.info/sct ID:260385009 Negative (qualifier value) LA6577-6
Invalid Copyright http://snomed.info/sct ID:455371000124106 Invalid result (qualifier value) LA15841-2

Basic Attributes

Class
MICRO
Type
Laboratory
First Released
Version 2.68
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

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:唾液:序数型:序列测定
nl-NLDutch (Netherlands)
SARS-CoV-2 RNA:aanwezigheid:moment:speeksel:ordinaal:sequencing
fr-CAFrench (Canada)
coronavirus 2 du SRAS , ARN:Présence-Seuil:Temps ponctuel:Salivaire:Ordinal:Séquençage
fr-FRFrench (France)
Coronavirus SARS-CoV-2 ARN:Présence/Seuil:Ponctuel:Salive:Qualitatif:Séquençage
de-DEGerman (Germany)
SARS-Coronavirus 2 RNA:Nachweis oder Schwellenwert:Zeitpunkt:Speichel (Mundflüssigkeit):Ordinal:Sequenzierung
it-ITItalian (Italy)
SARS coronavirus 2 RNA:PrThr:Pt:Saliva:Ord:Sequenziamento
pl-PLPolish (Poland)
SARS-CoV-2 RNA:obecność lub wartość progowa:Punkt w czasie:Ślina:Porządkowy:Sekwencjonowanie
es-MXSpanish (Mexico)
ARN del coronavirus 2 del SARS:Presencia o umbral:Punto temporal:Saliva:Ordinal:Secuenciación
es-ESSpanish (Spain)
Panel del SARS-CoV-2 (COVID-19) RNA:PrThr:Punto temporal:Saliva:Ord:Secuenciación

LOINC FHIR® API Example - CodeSystem Request Get Info

https://fhir.loinc.org/CodeSystem/$lookup?system=http://loinc.org&code=94822-4