95609-4
SARS-CoV-2 (COVID-19) S gene [Presence] in Respiratory system specimen by Sequencing
Active
Term Description
Qualitative detection of nucleic acids within the spike (S) gene of 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
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
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
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
- PrThr
- Time
- Pt
- System
- Respiratory System Specimen
- Scale
- Ord
- Method
- Sequencing
Additional Names
- Short Name
- SARS-CoV-2 S gene Resp Ql Seq
- Display Name
- SARS-CoV-2 (COVID-19) S gene Sequencing Ql (Respiratory system specimen)
- Consumer Name Alpha Get Info
- SARS-CoV-2 (COVID-19) S gene, Respiratory system specimen
Example Answer List: LL5508-8
Source: Centers for Disease Control and Prevention| Answer | Code | Score | Answer ID |
|---|---|---|---|
| Detected | LA11882-0 | ||
| Not detected | LA11883-8 | ||
| InconclusiveCopyright http://snomed.info/sct ID:419984006 Inconclusive (qualifier value) | LA9663-1 | ||
| InvalidCopyright http://snomed.info/sct ID:455371000124106 Invalid result (qualifier value) | LA15841-2 |
Basic Attributes
- Class
- MICRO
- Type
- Laboratory
- First Released
- Version 2.69
- Last Updated
- Version 2.75
- 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
- Both
Member of these Groups Get Info
| LOINC Group | Group Name |
|---|---|
| LG51033-5 | SARS coronavirus 2 S gene| |
| 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: |
| es-ES | Spanish (Spain) | Gen S de SARS-CoV-2 (COVID-19): Synonyms: Muestra del tracto respiratorio Muestra respiratoria Tracto respiratorio |
| es-MX | Spanish (Mexico) | Gen del coronavirus 2 S del SARS: |
| fr-FR | French (France) | Coronavirus SARS-CoV-2 gène S: |
| fr-CA | French (Canada) | gène S du coronavirus 2 du SRAS: |
| it-IT | Italian (Italy) | SARS-CoV-2 (COVID-19), gene S: Synonyms: Campione da Apparato Respiratorio Coronavirus della SARS Gene S di SARS-CoV-2 (COVID-19) Microbiologia Presenza o Soglia Punto nel tempo (episodio) SARS-CoV-2 (COVID-19) |
| nl-NL | Dutch (Netherlands) | SARS-CoV-2 S-gen: Synonyms: SARS-virus severe acute respiratory syndrome coronavirus 2; |
| zh-CN | Chinese (China) | SARS 冠状病毒 2 S 基因: Synonyms: 2019 新型冠状病毒; |
LOINC Terminology Service (API) using HL7® FHIR® Get Info
Requests to this service require a free LOINC username and password. Below is a sample of the possible capabilities. See the LOINC Terminology Service documentation for more information.
- CodeSystem lookup
- https:
//fhir.loinc.org/CodeSystem/$lookup?system=http: //loinc.org&code=95609-4
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LOINC Copyright
Copyright © 2024 Regenstrief Institute, Inc. All Rights Reserved. To the extent included herein, the LOINC table and LOINC codes are copyright