Version 2.78

Term Description

Quantitative detection (Cq/Ct value) of nucleic acids within the spike (S) gene of SARS coronavirus 2 (SARS-CoV-2) in oropharyngeal wash (oral rinse, gargle) samples by nucleic acid amplification (NAA) with probe-based detection methods.
Source: Regenstrief LOINC

Part Descriptions

LP418046-1   SARS coronavirus 2 S gene
The Severe acute respiratory syndrome (SARS) coronavirus 2 (SARS-CoV-2), first known as 2019 Novel Coronavirus (2019-nCoV), was first identified as the cause of a respiratory illness outbreak, later defined as Coronavirus Disease 2019 (COVID-19), in Wuhan, China. The full genome of the SARS-CoV-2 that causes COVID-19 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 targeting regions within genes, including RdRp, S, N, M, and E genes, specific to SARS-CoV-2 have been developed by the Centers for Disease Control and Prevention (CDC), the World Health Organization (WHO) and others for the diagnosis of COVID-19. Some assays only detect SARS-CoV-2 and other assays detect other strains (e.g. SARS-CoV) that are genetically similar.[CDC: coronavirus/2019-ncov][https://www.who.int/emergencies/diseases/novel-coronavirus-2019/technical-guidance/laboratory-guidance] Source: Regenstrief LOINC

LP422509-2   Oropharyngeal wash
Oropharyngeal wash, also known as gargle, oral rinse or throat wash, includes a sampling of the entire oral cavity, including the oropharyngeal, nasopharynx, tongue, saliva, larynx and oral mucosa. The gargle sample collection method involves a patient gargling a sterile saline solution and spitting it into a collection tube. The sample may be used for the molecular detection of various respiratory infections, including SARS coronavirus 2 (COVID-19). Source: LOINC

Reference Information

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

Fully-Specified Name

Component
SARS coronavirus 2 S gene
Property
ThreshNum
Time
Pt
System
Oropharyngeal wash
Scale
Qn
Method
Probe.amp.tar

Additional Names

Short Name
SARS-CoV-2 S gene Ct OPA wash Qn NAA+prb
Display Name
SARS-CoV-2 (COVID-19) S gene NAA+probe (Oropharyngeal wash) [ThreshNum]
Consumer Name Alpha Get Info
SARS-CoV-2 (COVID-19) S gene, Oropharyngeal wash

Basic Attributes

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

Member of these Panels

LOINC Long Common Name
96897-4 SARS-CoV-2 (COVID-19) RNA panel - Oropharyngeal wash by NAA with probe detection

Member of these Groups Get Info

LOINC Group Group Name
LG51017-8 SARSCoV2 detection
LG51019-4 SARSCoV2 molecular detection

Language Variants Get Info

Tag Language Translation
de-DE German (Germany) SARS-Coronavirus 2 S-Gen:Ct-Wert:Zeitpunkt:Oropharyngeale Lavage:Quantitativ:Zielfragmentamplifikation mit Sondendetektion
es-ES Spanish (Spain) Gen S de SARS-CoV-2 (COVID-19):ThreshNnum:Punto temporal:Lavado orofaríngeo:Qn:Sonda con amplificación dirigida
Synonyms: Cuantitativo
es-MX Spanish (Mexico) Gen del coronavirus 2 S del SARS:ThreshNum:Punto temporal:Lavado orofaríngeo:Cuantitativo:Probe.amp.tar
fr-FR French (France) Coronavirus SARS-CoV-2 gène S:Cycle seuil:Ponctuel:Lavage oropharyngé:Numérique:PCR amplification de cible
it-IT Italian (Italy) SARS-CoV-2 (COVID-19), gene S:Thresnum:Pt:Lavaggio orofaringeo:Qn:Sonda.amp.tar
Synonyms: Coronavirus della SARS Gene S di SARS-CoV-2 (COVID-19) Limite di soglia Microbiologia Punto nel tempo (episodio) SARS-CoV-2 (COVID-19) Sonda con amplificazione Sonda con amplificazione del target Sonda di DNA
nl-NL Dutch (Netherlands) SARS-CoV-2 S-gen:drempelwaarde nummer:moment:orofaryngeaal spoelsel:kwantitatief:probe-detectie
Synonyms: probe.amp.tar SARS-virus severe acute respiratory syndrome coronavirus 2; 2019-nCoV; 2019 novel coronavirus; COVID-19
zh-CN Chinese (China) SARS 冠状病毒 2 S 基因:阈值循环圈数:时间点:口咽洗液:定量型:探针法.基因扩增.靶向
Synonyms: 2019 新型冠状病毒;2019 年新型冠状病毒;2019-nCoV;SARS-CoV-2;新型冠状病毒肺炎;新冠肺炎;Coronavirus disease 2019;COVID-19;冠状病毒疾病2019;严重急性呼吸综合征;severe acute respiratory syndrome;SARS;传染性非典型肺炎;infectious atypical pneumonia;非典 Ⅱ II S 型 SARS;SARS 病毒;SARS-CoV;严重急性呼吸综合征;严重急性呼吸综合征病毒;萨斯病毒;非典;非典型肺炎;非典型肺炎病毒;非典病毒 借助扩增的探针方法;借助扩增的探针法;探针法.扩增 借助靶向扩增的探针方法;借助靶向扩增的探针法;探针法.扩增.靶向 口咽（口咽部）洗液（洗剂） 可用数量表示的;定量性;数值型;数量型;连续数值型标尺 微生物学;微生物学试验;微生物学试验（培养、DNA、抗原及抗体） 扩增型 扩增性 时刻;随机;随意;瞬间 界值数;界限数;阀值数;临界值数;阈值循环数;阈值数;达到阈值时的循环圈数;荧光信号到达设定阈值时所经历的循环数;Ct 值;Cycle threshold;循环阈值 经过扩增的 脱氧核糖核酸探针 遗传基因;遗传因子;吉恩;生物基因

Example Units

Unit Source
{Ct_value} Example UCUM Units

LOINC Terminology Service (API) using HL7® FHIR® Get Info

CodeSystem lookup
https://fhir.loinc.org/CodeSystem/$lookup?system=http://loinc.org&code=96900-6