Version 2.76

Term Description

This panel contains results for the detection of Severe acute respiratory syndrome (SARS) coronavirus 2 (SARS-CoV-2), initially known as 2019-Novel Coronavirus (2019-nCoV), in any respiratory specimen using nucleic acid amplification assays with probe-based detection for the diagnosis of Coronavirus Disease 2019 (COVID-19).
Source: Regenstrief LOINC

Part Description

LP417539-6   SARS coronavirus 2 RNA panel
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

Panel Hierarchy

Details for each LOINC in Panel LHC-Forms

LOINC Name R/O/C Cardinality Example UCUM Units
94531-1 SARS-CoV-2 (COVID-19) RNA panel - Respiratory system specimen by NAA with probe detection
Indent94500-6 SARS-CoV-2 (COVID-19) RNA [Presence] in Respiratory system specimen by NAA with probe detection
Indent94745-7 SARS-CoV-2 (COVID-19) RNA [Cycle Threshold #] in Respiratory system specimen by NAA with probe detection {Ct_value}
Indent96763-8 SARS-CoV-2 (COVID-19) E gene [Presence] in Respiratory system specimen by NAA with probe detection
Indent96764-6 SARS-CoV-2 (COVID-19) E gene [Cycle Threshold #] in Respiratory system specimen by NAA with probe detection {Ct_value}
Indent94533-7 SARS-CoV-2 (COVID-19) N gene [Presence] in Respiratory system specimen by NAA with probe detection
Indent94757-2 SARS-CoV-2 (COVID-19) N gene [Presence] in Respiratory system specimen by Nucleic acid amplification using CDC primer-probe set N2
Indent94756-4 SARS-CoV-2 (COVID-19) N gene [Presence] in Respiratory system specimen by Nucleic acid amplification using CDC primer-probe set N1
Indent95522-9 SARS-CoV-2 (COVID-19) N gene [Log #/volume] (viral load) in Respiratory system specimen by NAA with probe detection {Log_copies}/mL
Indent95521-1 SARS-CoV-2 (COVID-19) N gene [#/volume] (viral load) in Respiratory system specimen by NAA with probe detection {copies}/mL
Indent94534-5 SARS-CoV-2 (COVID-19) RdRp gene [Presence] in Respiratory system specimen by NAA with probe detection
Indent94646-7 SARS-CoV-2 (COVID-19) RdRp gene [Cycle Threshold #] in Respiratory system specimen by NAA with probe detection {Ct_value}
Indent94559-2 SARS-CoV-2 (COVID-19) ORF1ab region [Presence] in Respiratory system specimen by NAA with probe detection
Indent94644-2 SARS-CoV-2 (COVID-19) ORF1ab region [Cycle Threshold #] in Respiratory system specimen by NAA with probe detection {Ct_value}
Indent94640-0 SARS-CoV-2 (COVID-19) S gene [Presence] in Respiratory system specimen by NAA with probe detection
Indent94642-6 SARS-CoV-2 (COVID-19) S gene [Cycle Threshold #] in Respiratory system specimen by NAA with probe detection {Ct_value}
Indent94758-0 SARS-related coronavirus E gene [Presence] in Respiratory system specimen by NAA with probe detection
Indent94502-2 SARS-related coronavirus RNA [Presence] in Respiratory system specimen by NAA with probe detection
Indent94532-9 SARS-related coronavirus+MERS coronavirus RNA [Presence] in Respiratory system specimen by NAA with probe detection
Indent97104-4 SARS-CoV-2 (COVID-19) ORF1ab region [Units/volume] (viral load) in Upper respiratory specimen by NAA with probe detection [IU]/mL

Fully-Specified Name

Component
SARS coronavirus 2 RNA panel
Property
-
Time
Pt
System
Respiratory System Specimen
Scale
-
Method
Probe.amp.tar

Additional Names

Short Name
SARS-CoV-2 RNA Pnl Resp NAA+probe
Display Name
SARS-CoV-2 (COVID-19) RNA panel NAA+probe (Respiratory system specimen)
Consumer Name Alpha Get Info
SARS-CoV-2 (COVID-19) RNA Panel, Respiratory system specimen

Ask at Order Entry

81959-9 Public health laboratory ask at order entry panel

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

Basic Attributes

Class
PANEL.MICRO
Type
Laboratory
First Released
Version 2.68
Last Updated
Version 2.76
Change Reason
Release 2.75: SYSTEM: There are 2 similar system's in LOINC: 1- Respiratory system 2- Respiratory specimen Due to an applied logic, the display in the System axis for 1 is Respiratory (adjective) without specification of sample, specimen, or other specific noun, while 2 is displayed fully as Respiratory specimen. Therefore for now we replaced 1 with Respiratory system specimen, which will affect 83 term. The result is replacing "Respiratory" with "Respiratory system specimen". This is the short approach. The bigger project is to potentially merge data that has either 1 or 2 together. This is a project to pass by the laboratory committee and will involve about 1500 concepts.;
Order vs. Observation
Order
Panel Type
Panel

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 RNA (Liste):-:Zeitpunkt:Respirationstrakt:-:Zielfragmentamplifikation mit Sondendetektion
es-ES Spanish (Spain) Panel de ARN del SARS-CoV-2 (COVID-19):Propiedades mixtas (sólo paneles):Punto temporal:Muestra del sistema respiratorio:-:Sonda con amplificación dirigida
Synonyms: Muestra del tracto respiratorio Muestra respiratoria Tracto respiratorio
es-MX Spanish (Mexico) Panel de ARN del coronavirus 2 del SARS:-:Punto temporal:Espécimen respiratorio:-:Amplificación de ácidos nucleicos con detección de sonda
fr-FR French (France) Coronavirus SARS-CoV-2 ARN panel:-:Ponctuel:Spécimen du système respiratoire:-:PCR amplification de cible
fr-CA French (Canada) Coronavirus 2 du SRAS, ARN:-:Temps ponctuel:Échantillon du système respiratoire:-:Sonde avec amplification de la cible
it-IT Italian (Italy) SARS coronavirus 2, panel RNA:-:Pt:Campione da Sistema Respiratorio:-:Sonda.amp.tar
Synonyms: Campione da Apparato Respiratorio Coronavirus della SARS Microbiologia Panel RNA di SARS-CoV-2 (COVID-19) Punto nel tempo (episodio) SARS-CoV-2 (COVID-19) Set di prescrizione microbiologia Sonda con amplificazione Sonda con amplificazione del target Sonda di DNA
nl-NL Dutch (Netherlands) SARS-CoV-2 RNA panel:-:moment:ademhalingsstelsel:-:probe-detectie
Synonyms: probe.amp.tar SARS-virus severe acute respiratory syndrome coronavirus 2; 2019-nCoV; 2019 novel coronavirus; COVID-19 systema respiratorium; ademhalingsstelsel

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

CodeSystem lookup
https://fhir.loinc.org/CodeSystem/$lookup?system=http://loinc.org&code=94531-1
Questionnaire definition
https://fhir.loinc.org/Questionnaire/?url=http://loinc.org/q/94531-1