Curbing the Threat of Infectious Diseases

Identify Pathogens and Study the Host Immune Response

Understanding the complex interplay between a pathogen and the host response is important to developing effective vaccines and therapeutics. NanoString’s nCounter® Analysis System and GeoMx® Digital Spatial Profiler (DSP) enable researchers to rapidly perform high-plex experiments in key areas of biology that answer questions related to the effect of pathogen infection at the molecular, cellular, tissue, and individual level. 


The nCounter Analysis System has been utilized in hundreds of studies of pathogens and the related host response. In one recently published example, researchers used the nCounter Analysis System to study the dynamic immune response that shapes COVID-19 progression (Ong et al, Cell Host and Microbe 2020).

 Additional examples of infectious disease research enabled by nCounter include:

  • Identifying Multiple Bacterial and Viral Species in a Single Assay
  • Investigating the Immune Response to Tuberculosis
  • A Thorough Analysis of the Inflammatory Response to West Nile Virus Infection
  • Studying a Fungal Pathogen’s Gene Expression In Vivo
  • Using MicroRNAs (miRNAs) to Diagnose Severe Viral Infections

The GeoMx DSP enables high-plex spatial analysis of pathogens and the host response with FFPE and fresh frozen tissue samples. NanoString is developing a five-antibody custom protein panel and an ~1,800-plex RNA panel to facilitate spatial studies of the SARs-CoV-2 virus and host response. These assays will allow for profiling of SARs-CoV-2 viral markers and the ACE2 receptor, among other receptors, proteases, cell markers, and viral response markers, and will be available as early as May 2020.

Multiplexed Infectious Disease Analysis

Read our white paper "Multiplexed Infectious Disease Analysis," to learn more about the studies outlined above. 

Research Solutions for COVID-19

Read our ebook to learn about how NanoString customers are using the nCounter Analysis System and GeoMx DSP to combat COVID-19


Summary of viral infection publications by NanoString customers

Huang B. et al., "Inflammatory responses to a pathogenic West Nile virus strain." BMC Infectious Disease. October 29, 2019.

Chan K. et al., "A T164S mutation in the dengue virus NS1 protein is associated with greater disease severity in mice." Science Translational Medicine. June 26, 2019.

Choi Y. et al., "Severe fever with thrombocytopenia syndrome phlebovirus non-structural protein activates TPL2 signalling pathway for viral immunopathogenesis." Nature Microbiology. January 7, 2019.

Jochems S. et al., "Inflammation induced by influenza virus impairs human innate immune control of pneumococcus." Nature Immunology. October 29, 2018.

Bouszas M. et al., "Diagnostic accuracy of digital RNA quantification versus real-time PCR for the detection of respiratory syncytial virus in nasopharyngeal aspirates from children with acute respiratory infection." Journal of Clinical Virology. July 18, 2018.

Savarin C. et al., "Distinct Gene Profiles of Bone Marrow-Derived Macrophages and Microglia During Neurotropic Coronavirus-Induced Demyelination." Frontiers in Immunology. June 11, 2018.

Speranza, E et al., "A conserved transcriptional response to intranasal Ebola virus exposure in nonhuman primates prior to onset of fever." Science Translational Medicine. March 28, 2018.

Li, Y. et al., "Nonstructural proteins nsp2TF and nsp2N of porcine reproductive and respiratory syndrome virus (PRRSV) play important roles in suppressing host innate immune responses." Virology. January 8, 2018.

Green R. et al., "Identifying protective host gene expression signatures within the spleen during West Nile virus infection in the collaborative cross model" Genomics Data [Epub ahead of print]. October 14, 2016

Sweeney T.E. et al., "Robust classification of bacterial and viral infections via integrated host gene expression diagnostics" Sci. Transl. Med. [Epub ahead of print]. July 06, 2016

Kienesberger S. et al., "Gastric Helicobacter pylori Infection Affects Local and Distant Microbial Populations and Host Responses." Cell Reports [Epub ahead of print]. February 04, 2016.

Xu W. et al., "Pathogen Gene Expression Profiling during Infection Using a NanoString nCounter Platform." Meth. Mol. Biol. [Epub ahead of print]. October 20, 2015

Van Tyne D. et al., "Plasmodium falciparum gene expression measured directly from tissue during human infection." Genome Medicine [Epub ahead of print]. November 29, 2014.

Barczak AK, et al., "RNA signatures allow rapid identification of pathogens and antibiotic susceptibilities" PNAS [Epub ahead of print]. April 02, 2012

or Click here to view all nCounter publications on Infectious Disease.

For Research Use Only. Not for use in diagnostic procedures.