High-Throughput Screening (HTS) Cytometry by Sartorius

Scientists use flow cytometry to investigate complex biological processes as part of routine cell analysis workflows. This research has a significant impact on society as it drives progress in antibody discovery, T-cell engineering, and immuno-oncology. To keep pace with market demands, scientists need a faster way to generate biologically relevant data from high-throughput research workflows.

Sartorius recognizes the need to update the decades-old complexity in flow cytometry instruments that utilize inefficient, disjointed sampling and data analysis workflows, making them unsuitable for high-throughput applications. Our intuitive iQue® HTS cytometers can take you from sample to biologically relevant data faster than any other instrument on the market. Additionally, elegant, and easy-to-use software.


Explore the iQue® HTS Platform  Explore HTS by Cytometry Applications

High-Throughput Screening (HTS) by Cytometry 

HTS Cytometry Instruments 

Meet iQue® HTS cytometry, with a focus on speed from setup to the acquisition, and analysis.

Explore iQue® HTS Instruments 

Flow Cytometry Software

iQue® Forecyt software enables interactive assay development, analysis and multiparameter data visualization.

Explore Flow Cytometry Software

HTS Cytometry Reagents 

iQue® kits include reagents validated on the iQue® HTS Platform.

Explore iQue® HTS Reagents 

Video: Speed Up Your Entire Workflow With Sartorius High-Throughput Screening (HTS) Cytometry Solutions

The iQue® HTS Platform has the ability to handle 96, 384, or 1536-well plates, and enables continuous plate loading through connection with any automation system.

Explore iQue® HTS Cytometry Instruments 

High-Throughput Screening (HTS) by Cytometry Applications

HTS Screening by Cytometry Applications to Support Your Most Important Research 

Sartorius HTS Cytometry applications allow for live-cell, multiplexed analysis of cell phenotype and function in a single well to resolve complex cellular research questions.

Generate relevant and accurate data through simultaneous analysis of multiple biological readouts and quickly identify your next discovery using The iQue® HTS Platform.


Explore HTS Cytometry Applications  Explore iQue® HTS Cytometry Instruments

Antibody Characterization

Increase data throughput and quality by multiplexing antibody binding, function, and titer across the process

Cytokine Profiling

Assess multiple cell parameters faster, with fewer cells and less reagents

Cell Monitoring and Workflows

Streamlined combined workflows and protocols that are simple and easy to follow providing greater biological insights

Immune Cell Function

Understand the Complexities of the Immune System with the iQue® HTS Platform

Cell Health & Proliferation

Analyze cell health, viability and proliferation on a cell-by-cell basis with The iQue® HTS Platform 

See What Sartorius Has to Offer In High-Throughput Screening (HTS) by Cytometry

Why Choose Sartorius High-Throughput Cytometry Solutions?

iQue Flow Cytometry Instrument plate processing
Simple Assay Setup
  • Optimized mix-and-read reagent kits with ready-to-use analysis templates
  • Flexible fluorophore options with up to 3 laser excitation and 13 color emission channels
  • No adjustment optics for scalable, reliable, and reproducible data collection in multi-user environments
Intelligent Hardware Integration
  • Enhanced rinse station with intelligent software reporting of cartridge levels
  • Patented sampling technology processes 96 wells in as little as 5 minutes; 384 wells in 20 minutes
  • Automated plate calibration, QC, detector cleaning and shut down
Real-Time Data Acquisition and Analysis
  • Single-software solution for all your acquisition and analysis needs
  • Rapid data visualization—adjust a gate to see updated plate-wide analysis in real time
  • Guided creation of metrics, statistics, visualizations and reports
Dynamic Visualization of Results
  • Easily identify wells of interest using multiple selection criteria
  • Compare, identify, and rank wells in all plates across your experiment
  • Drill down from experiment level, to plate level, to well level, to cell level

Case Studies: Hear From Sartorius High-Throughput (HTS) Cytometry User...

University of Copenhagen Immunology

Learn about the use of advanced high throughput cytometry and how it helps direct drug selection in patients with relapsed Acute Myeloid Leukemia

See All Case Studies & Testimonials

University of Liverpool Small Molecule Discovery

This video describes the use of HTS cytometry to detect the uptake and transport across membranes of small molecules by microbes

See All Case Studies & Testimonials

High-Throughput Cytometry Resources

Explore HTS Cytometry Resources

First Edition High-Throughput Screening Cytometry Handbook

A Guide to HTS Cytometry Assays and Workflows

Access the Handbook

Product Resources


iQue®️ High-Throughput Cytometry Platform Brochure

PDF | 8.6 MB

iQue® 3 and iQue® Screener Plus Fluorochrome Chart

PDF | 451.2 KB

Additional Resources

Introduction to High-Throughput Screening Cytometry

Faster time to actionable results. Turn complex science into meaningful insights with cell phenotyping and secreted protein detection within the same well.

Get to Know High-Throughput Screening Cytometry

iQue® High-Throughput Cytometry Publications

With over 400 references worldwide, the iQue®️ HTS Platform helps researchers explore new areas of study and address questions fundamental to life science research.

Explore All iQue® Publications

High-Throughput Cytometry Servicing and Support

Our Global Technical Support team provides expert installation, training, technical support and repair services to our customers worldwide. 

Explore Servicing & Support

Frequently Asked Questions

Sartorius Flow Cytometry FAQs

Get answers to the most common questions about about Sartorius flow cytometry solutions including critical information regarding instruments, applications, software, service, and more.

Need an Answer? Submit a Question

Flow cytometry analyzes the physical characteristics of suspension cells and particles using information about their size, complexity (also termed granularity) and relative fluorescence intensity.

The fluidics system of a flow cytometer transports the fluid stream to a laser beam. Cells or particles pass through the laser one by one, in single file. In the optics system component of a flow cytometer, the laser beam illuminates the cells/particles and directs the scattered light and fluorescence to the appropriate detectors.

The electronics system of a flow cytometer converts these light signals into electronic signals that can be processed by your computer. A typical flow cytometer can be set to collect a certain number of events per sample.

Any suspended particle or cell from 0.2–150 micrometers in size is suitable for analysis. Cells from solid tissue must be desegregated before analysis.

To gather additional information, cells can be labeled with fluorescent molecules. Specifically, fluorochrome-labeled antibodies can be bound to proteins on the cellular surface (antigens). If a cell has many antigens, a large number of fluorochrome-labeled antibodies will bind to it producing a strong fluorescent signal. A cell with no or few antigens will produce a weaker fluorescent signal.

Fluorescent marker, such as a fluorophore-conjugated antibody, directly target an epitope of interest and allow its biological and biochemical properties to be measured. Fluorescent markers are useful in a wide range of applications, including identifying and quantifying distinct populations of cells, cell surface receptors, or intracellular targets, cell sorting, immunophenotyping, and apoptosis studies. 

In a flow cytometry experiment, every cell that passes through the interrogation point and is detected will be counted as a distinct event. Each type of light that is detected (forward-scatter, side-scatter, and each different wavelength of fluorescence emission) will also have its own unique channel.

The data for each event is plotted independently to represent the signal intensity of light detected in each channel for every event. This data could be visually represented in multiple different ways. The most common types of data graphs used in flow cytometry include histograms, dot plots and contour diagrams.


A histogram is commonly used to compare the fluorescence intensity of two or more populations. 

Dot Plots

Dot plots compare 2 or 3 parameters simultaneously on a scatter-plot where each event is represented as a single point (or dot). The dot plot is a figure that shows the relationship between multiple variables at once, and the parameters can be any combination of scatter and fluorescence signals. 

Contour Plots

Contour plots display the relative frequency of the populations, regardless of the number of events collected. A contour diagram displays the probability contouring with joined lines representing similar numbers of cells. Concentric rings form around populations so that the higher the density, the closer the rings are on the contour diagram. 

Figure 1. Examples of flow cytometry data. (A) Raji cells (brightly labeled with iQue® Cell Proliferation and Encoding (V/Blue) Dye), Ramos cells (dimly labeled with encoder dye) and Jurkat cells (unlabeled) were combined (5K/well) for a CDC assay and separated based on their encoder dye fluorescence, as displayed in the histogram. (B) Dot plot example of pre-defined gates on iQue Forecyt® enable automatic phenotyping of human T cell subsets. (C) Contour plot with clear gating of the CD14 positive population.

Flow cytometry is a powerful tool that has applications in immunology, molecular biology, bacteriology, virology, cancer biology and infectious disease monitoring. The most used application in flow cytometry is immunophenotyping. It utilizes the unique ability of flow cytometry to simultaneously analyze mixed populations of cells for multiple parameters such as surface markers, cytokine analysis and cell health. 

Request a Quote, Demo, or More Information

What other areas are you interested in? (select all that apply)

Request a Demo, Literature, or More Information

Ready to Buy?