94822-4

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

Active

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.

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

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

LOINC Names Get Info

Fully-Specified Name

SARS coronavirus 2 RNA:PrThr:Pt:Saliva:Ord:Sequencing

Long Common Name

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

Short Name

SARS-CoV-2 RNA Sal Ql Seq

Display Name

SARS-CoV-2 (COVID-19) RNA Sequencing Ql (Sal)

Consumer Name Alpha Get Info

SARS-CoV-2 (COVID-19), Saliva

Part Model Get Info

• Component

  SARS coronavirus 2 RNA
  LP417541-2

  • Analyte

    SARS coronavirus 2 RNA
    LP417541-2

    • Component Numerator

      SARS coronavirus 2 RNA
      LP417541-2

      • Component Numerator Core

        SARS coronavirus 2
        LP417540-4

      • Component Numerator Core Suffix

        RNA
        LP32423-3

    • Component Denominator

      NULL
       

      • Component Denominator Core

        NULL
         

      • Component Denominator Core Suffix

        NULL
         

  • Challenge

    NULL
     

  • Adjustment

    NULL
     

  • Count

    NULL
     

• Property

  PrThr
  LP217195-9

• Time

  Pt
  LP6960-1

  • Time Core

    Pt
    LP6960-1

  • Time Modifier

    NULL
     

• System

  Saliva
  LP7565-7

  • System Core

    Saliva
    LP7565-7

  • Super System

    NULL
     

• Scale

  Ord
  LP7751-3

• Method

  Sequencing
  LP150045-5

Ask at Order Entry

Example Answer List: LL2021-5

Basic Attributes

Class

MICRO

Type

Laboratory

First Released

Version 2.68

Last Updated

Version 2.69 (MIN)

Order vs. Observation

Both

Member of these Groups Get Info

Language Variants Get Info

Related Names

• 2019 Novel Coronavirus
• 2019-nCoV
• Corona virus
• COVID19
• COVID-19
• high-throughput sequencing
• HTS
• ID
• II
• Infectious Disease
• InfectiousDisease
• Microbiology
• Next generation sequencing
• NGS
• Oral fluid
• Ordinal
• Point in time
• PR
• QL
• Qual
• Qualitative
• Random
• Ribonucleic acid
• Sal
• SARS Coronavirus 1
• SARS-CoV
• SARS-CoV-1
• SARS-CoV-2
• Screen
• Severe Acute Respiratory Syndrome
• Viral Pneumonias
• Wuhan coronavirus

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CodeSystem lookup

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LOINC Copyright

Copyright © Regenstrief Institute, Inc. All Rights Reserved. To the extent included herein, the LOINC table and LOINC codes are copyright © Regenstrief Institute, Inc. and the Logical Observation Identifiers Names and Codes (LOINC) Committee. See https://loinc.org/license for the full LOINC copyright and license.