Version 2.78

Term Description

Quantitative detection of nucleic acids within the envelope (E) gene of SARS-related coronavirus in various specimens, including lower & upper respiratory, serum, stool or urine, by nucleic acid amplification with probe-based detection. Various assays have been developed that contain primer-probe sets targeting the E gene. [https://www.who.int/emergencies/diseases/novel-coronavirus-2019/technical-guidance/laboratory-guidance]
Source: Regenstrief LOINC

Part Description

LP417600-6   SARS-related coronavirus E 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

Reference Information

Type Source Reference
Webcontent Lab Tests Online®Copyright Copyright © 2021 Lab Tests Online. All rights reserved. Coronavirus (COVID-19) Testing
Mapping Guidance LOINC Take caution when mapping LOINC codes to molecular tests for SARS coronaviruses that target nucleic acids within the E gene. Such assays detect either SARS-related coronavirus or SARS-CoV-2, depending on the targeted region within the E gene. Assays that are non-specific to only SARS-CoV-2 may say they are "positive" for SARS-CoV-2, but only because it is the primary circulating virus during the pandemic. These assays actually detect any SARS-related coronaviruses since they target a region in the E gene that contains sequence homology to other known coronaviruses. Other assays target a region in the E gene that is specific for SARS-CoV-2. The LIVD file contains current LOINC code mappings to many IVD tests [https://www.cdc.gov/csels/dls/sars-cov-2-livd-codes.html]. You may also contact the manufacturer directly to verify LOINC code mappings.

Fully-Specified Name

Component
SARS-related coronavirus E gene
Property
ThreshNum
Time
Pt
System
XXX
Scale
Qn
Method
Probe.amp.tar

Additional Names

Short Name
SARS-rel CoV E gene Ct Spec Qn NAA+probe
Display Name
SARS-related coronavirus E gene NAA+probe (Specimen) [ThreshNum]
Consumer Name Alpha Get Info
SARS-related coronavirus E gene, Specimen

Basic Attributes

Class
MICRO
Type
Laboratory
First Released
Version 2.68
Last Updated
Version 2.69
Order vs. Observation
Observation

Member of these Panels

LOINC Long Common Name
94306-8 SARS-CoV-2 (COVID-19) RNA panel - Specimen by NAA with probe detection

Member of these Groups Get Info

LOINC Group Group Name
LG50982-4 SARS-related coronavirus

Language Variants Get Info

Tag Language Translation
de-DE German (Germany) SARS-bezogenes Coronavirus E-Gen:Ct-Wert:Zeitpunkt:XXX:Quantitativ:Zielfragmentamplifikation mit Sondendetektion
es-ES Spanish (Spain) Gen del coronavirus E relacionado con el SARS:ThreshNnum:Punto temporal:XXX:Qn:Sonda con amplificación dirigida
Synonyms: Cuantitativo
es-MX Spanish (Mexico) Gen del coronavirus E relacionado con el SARS:ThreshNum:Punto temporal:XXX:Cuantitativo:Amplificación de ácidos nucleicos con detección de sonda
fr-FR French (France) Coronavirus SARS apparentés gène E:Cycle seuil:Ponctuel:Milieux divers:Numérique:PCR amplification de cible
it-IT Italian (Italy) Coronavirus correlato a SARS, gene E:Thresnum:Pt:XXX:Qn:Sonda.amp.tar
Synonyms: Gene E di coronavirus correlato a SARS Limite di soglia Microbiologia Punto nel tempo (episodio) Sonda con amplificazione Sonda con amplificazione del target Sonda di DNA
nl-NL Dutch (Netherlands) SARS-gerelateerd coronavirus E-gen:drempelwaarde nummer:moment:XXX:kwantitatief:probe-detectie
Synonyms: probe.amp.tar
zh-CN Chinese (China) SARS 冠状病毒 2 E 基因:阈值循环圈数:时间点:XXX: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 E 型 不明的;其他;将在相应消息内其他部分之中加以详细说明;未作详细说明的;未作说明的;未做说明的标本;未加规定的;未加说明的标本;杂项 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 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 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=94509-7