Gene Expression Profiling

Gene expression is a widely used approach for characterizing biological perturbations, defining the molecular mechanisms of diseases, and making critical decisions about risks associated with compounds of interest. With INDIGO’s Gene Expression Services, you can reliably investigate compounds’ effects on metabolic activities with validated qPCR primers targeting clinically relevant CYP enzymes.

Gene Expression Profiling

INDIGO’s qPCR Solutions

Quantitative real-time PCR (qPCR) is the gold standard for gene expression analysis. Our team of experts in nuclear receptor biology and toxicology will provide the know-how in gene selection, primer design, and mRNA accumulation analysis.

INDIGO has experience in gene selection for disease and pathway-specific studies including inflammation-, cancer-, diabetes-, and drug metabolism-related gene expression. INDIGO also offers predesigned panels of optimized primers for nuclear receptor target genes including PXR, CAR, and PPARs.

INDIGO will provide data on mRNA levels relative to a housekeeping gene, statistical analysis, and interpretation in our study report.

Gene Expression Profiling, qPCR

Get Reliable Data & Clear Gene Expression Reports from Our Expert Scientists


Affordable Gene Expression Solutions

Reliable and cost-effective, we offer Gene Expression testing services designed to provide the answers you need.


Fast Screening & Data Delivery

Access crucial information on gene expression quickly with INDIGO’s gene expression services.


Detailed Reports & Available Technical Support

Our team delivers high-quality data analysis and reviews, putting INDIGO’s many years of experience at your service.

Get Started in Three Simple Steps

Design your next study rapidly and confidently with our expert team.


Step 1: Request a Quote in One Click

Fill out a Request a Quote form and tell us more about your study and objectives.


Step 2: Design Your Service Study with Our Scientists

Receive your quote and a custom draft of your Service Work Order.

Review and adjust to fit your needs.


Step 3: Send Your Samples and Get Your Results

Provide your samples or compounds, and we will do the rest.

Receive a complete data package and clear study reports in record time!

Transform your vision into clear results today.


Cranberry contains high levels of nutrients and bioactive molecules that have health‐promoting properties. The purpose of the present studies was to determine if cranberry extracts (CEs) contain phytochemicals that exert anti‐inflammatory effects. The human monocytic cell line THP‐1 was treated with two CEs (CE and 90MX) and subsequently challenged with Lipopolysaccharides (LPS). Tumor necrosis factor α (TNF α) expression was decreased in the CE‐treated cells, indicative of an anti‐inflammatory effect. Gene expression microarrays identified several immune‐related genes that were responsive to CEs including interferon‐induced protein with tetratricopeptide repeats 1 and 3 (IFIT 1 and 3), macrophage scavenger receptor 1 (MSR1) and colony‐stimulating factor 2 (CSF2). In addition, in the CE‐treated cells, metallothionein 1F and other metal‐responsive genes were induced. Taken together, this data indicates that CEs contain bioactive components that have anti‐inflammatory effects and may protect cells from oxidative damage.

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Frequently Asked Questions

INDIGO’s assays are not binding assays. They are cell-based trans-activation assays, and the principal application is in the screening of test samples to quantify any functional activity, either agonist or antagonist, that the compounds may exert against the nuclear receptors. INDIGO reporter systems utilize firefly luciferase reporter gene technology, and while there is a binding taking place, our assays do not measure it. Instead, the luciferase light response is measured which correlates to the activation status of the receptor (either activation or inhibition).

Quantifying changes in luciferase expression in the treated reporter cells provides a sensitive surrogate measure of the changes in receptor activity. It will tell the scientist the significance (strength) of the interaction by the level of light emitted. In addition, cell-based assays are more sensitive and able to detect smaller levels of activation.

INDIGO’s nuclear receptor assays utilize proprietary human and non-human mammalian cells engineered to provide constitutive, high-level expression of the designated receptor. Specific cell type information for each assay is proprietary and available only through consultation with INDIGO’s technical team following a screening service or assay kit purchase.

Reporter cells included in INIDIGO’s steroid hormone nuclear assay kits (ERα, ERβ, AR, PGR, MR, GR) express the native, full-length receptors. INDIGO’s other nuclear receptor assays, however, include reporter cells that express hybrid nuclear receptors. In these cases, the respective receptor’s native N-terminal sequence comprising the DNA Binding Domain (DBD) has been replaced with sequence encoding the yeast Gal4-DBD. All other native NR functional/structural domains (ligand binding domain, hinge region, and various activation domains) are present in these hybrid receptors. These reporter cells also contain the firefly luciferase reporter gene functionally linked to the upstream genetic response element for Gal4.

Consequently, once a bioactive compound associates with the ligand binding domain of the hybrid receptor, only the luciferase reporter gene is induced. Ligand-activation of the hybrid receptor will not induce collateral expression of target genes that are otherwise regulated by the native nuclear receptor.

View our list of reference compounds. We do utilize commercially available reference agonists for our assays, and this reference agonist is included in each assay kit. We do use reference antagonists where a reference is known and commercially available. Some of our antagonist assays do not have reference antagonists available.

Treatment concentrations are prepared at INDIGO using serial dilutions in fixed increments; the starting concentration and increment of dilution is specified by the customer via our Study Work Order sheet that accompanies all screening studies. For accurate determination of EC50 and/or IC50 values, we recommend at minimum spanning a 5,000-fold concentration range over 8 doses. This strategy requires a 3.33-fold or 4-fold increment of serial dilution. The minimum doses recommended for EC50 and/or IC50 value is 7 test concentrations.

Upon completion of your study, you will receive a detailed study report (PDF format) including all assay methods and validation, the raw data and calculations of your study (Excel format), and graphing files of all data (GraphPad Prism format). In addition, you are always welcome to contact INDIGO’s team for assistance in interpretation of your data.

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