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Hepatitis C Virus (HCV) Genotyping with NS5A Drug Resistance

Test Code: 30380


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Clinical and Procedure
Clinical Utility

The Hepatitis C Virus (HCV) Genotyping with NS5A Drug Resistance assay detects NS5 (nonstructural protein 5A) mutations and polymorphisms in HCV genotypes 1a, 1b, 2 and 3 that are associated with resistance to direct-acting antivirals: daclatasvir (Daklinza®), elbasvir, ledipasvir, ombitasvir, pibrentasvir, velpatasvir and other antiviral combination therapies. The assay is intended to be used for patients with HCV viral loads who are being screened prior to treatment with the direct-acting HCV antivirals, or during treatment with these antivirals when drug resistance is suspected.

About HCV

HCV infection is the most common chronic bloodborne infection in the U.S., with approximately 3.2 million people chronically infected and an additional 17,000 (approx.) new infections acquired annually. Multiple drugs approved to treat HCV target the NS5A protein. Specific mutations in these genes have been implicated in resistance to various HCV antiviral drugs including: daclatasvir (Daklinza®), elbasvir (in Zepatier®), ledipasvir (in Harvoni®), ombitasvir (in Viekira Pak®, Viekira XR® and Technivie®), pibrentasvir (in Mavyret®), and velpatasvir (in Epclusa® and Vosevi®). Multiple mutations causing resistance to these FDA-approved HCV inhibitors have been defined, and the levels of increased resistance for each mutation have been calculated using HCV replicons or reporter constructs. Some of the mutations cause resistance to multiple NS5A inhibitors. Knowledge of these mutations is important in patients since an incomplete suppression of viral replication by an ineffective drug combination could prevent a sustained viral response (“cure”), and could readily support the development of antiviral drug resistance.



This test includes two separate assays.

The HCV NS5A Genotyping assay includes extraction of nucleic acid followed by amplification. The amplified DNA is converted to single-stranded DNA via exonuclease digestion and is then combined with a signal buffer containing ferrocene-labeled signal probes that are specific to the different types/subtypes. The mixture of amplified sample and signal buffer is loaded onto the eSensor cartridge, which contains single-stranded oligonucleotide capture probes bound to gold-plated electrodes. The presence of each target is determined by voltammetry, which generates specific electrical signals from the ferrocene-labeled signal probe.

The HCV NS5A Drug Resistance assay utilizes RT-PCR amplification with primers in highly conserved viral genomic regions to amplify HCV genotypes 1a, 1b, 2 and 3. The fragments are purified and sequenced using sequencing primers from conserved regions of the fragments. The sequence is compared to a database of mutations associated with antiviral resistance. This test has not been cleared or approved for diagnostic use by the U.S. Food and Drug Administration.

Turnaround Time

4-11 business days from receipt of specimen.

Specimen Information
Specimen Type Order Code CPT Code NY Approved Volume Assay Range Special Instructions
Plasma (1) 30380 87902 No

3 mL (min. 2mL/viral load of 1000 IU/mL)

Resistant/Not Detected

  • Collect 4-5 mL whole blood in EDTA, ACD or PPT.
  • Centrifuge and transfer 3 mL plasma to a sterile, screw top tube.
  • Ship frozen on dry ice Monday through Friday.
  • Not stable ambient, stable 3 days refrigerated, stable 30 days frozen.
Serum (1) 30380 87902 No

3 mL (min. 1 mL/viral load of 1000 IU/mL)

Resistant/Not Detected

  • Collect 4-5 mL whole blood in red top tube or SST.
  • Centrifuge and transfer 2 mL serum to a sterile, screw top tube.
  • If the specimen was collected in SST, the entire tube can be shipped following centrifugation.
  • Ship frozen in dry ice Monday through Friday.
  • Stability: Not stable ambient, 3 days refrigerated, 30 days frozen.

Mutations in the NS5A gene will be reported as Resistant/None Detected. Interpretation of gene mutations and association with antiviral resistance of the relevant antivirals will be listed.


Ship Monday through Friday. Friday shipments must be labeled for Saturday delivery. All specimens must be labeled with patient's name and collection date. A Viracor Eurofins test requisition form must accompany each specimen. Multiple tests can be run on one specimen. Ship specimens FedEx Priority Overnight® to: Viracor Eurofins, 18000 W 99th St. Ste, #10, Lenexa, KS 66219.

Causes for Rejection

HCV RNA concentrations too low to allow antiviral resistance testing (see above for minimum volume and viral load), subtypes other than those indicated, whole blood frozen, specimens beyond their acceptable length of time from collection as listed in the specimen handling, or specimen types other than those listed.


Specimens are approved for testing in New York only when indicated in the Specimen Information field above. The CPT codes provided are based on Viracor Eurofins interpretation of the American Medical Association's Current Procedural Terminology (CPT) codes and are provided for informational purposes only. CPT coding is the sole responsibility of the billing party. Questions regarding coding should be addressed to your local Medicare carrier. Viracor Eurofins assumes no responsibility for billing errors due to reliance on the CPT codes illustrated in this material. 


Lavanchy D. 2011. Evolving epidemiology of hepatitis C virus. Clin Microbiol Infect 17:107–115. .

Mohd Hanafiah K, Groeger J, Flaxman AD, Wiersma ST. 2013. Global epidemiology of hepatitis C virus infection: new estimates of age-specific antibody to HCV seroprevalence. Hepatology 57:1333–1342.

Smith DB, Bukh J, Kuiken C, Muerhoff AS, Rice CM, Stapleton JT, Simmonds P. 2014. Expanded classification of hepatitis C virus into 7 genotypes and 67 subtypes: updated criteria and genotype assignment

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