Amnis® ImageStream®XMk II

High resolution microscopy and flow cytometry to advance your discovery

Amnis® ImageStream®X Mk II

Amnis ImageStreamX Mk II Imaging Flow Cytometer

The revolutionary ImageStream®X Mk II Imaging Flow Cytometer combines the speed, sensitivity, and phenotyping abilities of flow cytometry with the detailed imagery and functional insights of microscopy. This unique combination enables a broad range of applications that would be impossible using either technique alone.

The ImageStreamX Mk II System is a benchtop, multispectral, imaging flow cytometer designed for the acquisition of up to 12 channels of cellular imagery. By collecting large numbers of digital images per sample and providing a numerical representation of image-based features, the ImageStreamX Mk II combines the per cell information content provided by standard microscopy with the statistical significance afforded by large sample sizes common to standard flow cytometry. With the ImageStreamX Mk II System, fluorescence intensity measurements are acquired as with a conventional flow cytometer; however, the best applications for the ImageStreamX Mk II take advantage of the system’s imaging abilities to locate and quantitate the distribution of signals on in or between cells.

Available Kit & Reagent Offerings

Amnis cell imaging kits are available for important cell pathway and drug discovery applications.

View all kits and reagents

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Roswell Park Comprehensive Cancer Center & Their Partnership with Amnis® Imaging Flow Cytometers
Amnis ImageStreamX Mk II Imaging Flow Cytometer The revolutionary ImageStream®X Mk II Imaging Flow Cytometer combines the speed, sensitivity, and phenotyping abilities of flow cytometry with the detailed imagery and functional insights of microscopy. This unique combination enables a broad range of
See how imaging in flow has changed research at Roswell Park Comprehensive Cancer Center (RPCCC).

At the RPCCC Flow and Image Cytometry facility, Drs. Paul Wallace, Hans Minderman, and staff provide users with the best tools available for increasing statistical power and throughput for applications like measuring NFkB translocation that were formerly performed by laborious microscopy. Watch to learn how Amnis protocols have helped RPCCC researchers detect rare events like circulating tumor cells.

Features of the ImageStreamX Mk II System:

Fast: Analyzes Thousands of Cells Per Second

The ImageStreamX Mk II Imaging Flow Cytometer can analyze up to 5,000 cells/sec with real-time intensity compensation — ideal for rare cell analysis.

Easy-to-Use: Simple User Interface

The intuitive user interface provides real-time plotting and graphical gating, as well as images of every cell. The easy-to-use compensation wizard quickly guides you through setup of multi-color compensation matrices.

Flexible: Fits Your Sample, Your Targets, Your Fluorophores

The ImageStreamX II Imaging Flow Cytometer accepts up to 7 lasers and works with sample volumes of 20-200 µL for added experimental flexibility — perfect for multi-user laboratories.

Efficient: Less Sample Volume, Less Sample Waste

Fluidics that provide up to 95% sample utilization when every cell is required. Recover unused sample for further analysis when orthogonal methods are required.

Adaptable: Any Upgrade, Any Time

The modular design of the ImageStreamX Mk II Imaging Flow Cytometer allows the system to grow with your research needs and budget through a broad range of field-installable options. Most options, including additional lasers, can be installed at the factory or upgraded in the field by Luminex-certified field service personnel.

Imaging Flow Cytometers Research Areas

The powerful combination of quantitative image analysis and flow cytometry in a single platform creates exceptional new experimental capabilities. The following are examples of areas where the ImageStreamX Mk II imaging flow cytometer can bring more power and insights into your research.




Drug Discovery

Stem Cell Biology








Application: Nuclear Translocation of NFkB

The analysis of NFkB nuclear translocation shown below used three lasers and eight of 12 available detection channels. Cells were phenotyped using fluorescently-labeled antibodies against CD14, CD45, CD16, and CD3, while two additional image channels were used to quantitatively assess nuclear localization of NFkB by cross-correlation of the nuclear (DAPI) and NFkB (FITC) images. Brightfield and darkfield (SSC) images of each cell are included to provide morphological and structural detail.

Optimized kits for imaging flow cytometry are available to measure nuclear translocation either with your own antibody or with anti-NFkB. In addition, given the ease of detecting several markers simultaneously, this system opens the door to multiplexing and evaluating activation of subpopulations in complex biological samples.

Laser Options

An Expandable Fluorescent Palette

The standard 488 nm laser of the ImageStreamX Mk II Imaging Flow Cytometer may be augmented with up to six additional lasers, including 375, 405, 561, 592, and 642 nm. A high-power 488 nm laser upgrade is also available for enhanced detection of fluorescent dyes excited at that wavelength.


  • Increase experimental flexibility by utilizing a broader palette of fluorescent markers
  • Improve data quality by employing more spectrally distinct dyes, thereby reducing crosstalk
  • Improve throughput via multiplexing of experiments in a single tube or well
  • Additional laser options can be installed in the field by certified technicians
Expandable Fluorescent Palette Lasers

AutoSampler for Multiwell Plates

The AutoSampler option for the ImageStreamX Mk II Imaging Flow Cytometer enhances productivity with unattended sample loading from multiwell plates. The fully integrated AutoSampler option allows you to easily perform dose response and time course studies even in primary samples, due to the system’s capacity for imaging large numbers of cells from each sample.


  • Ideal for high throughput analysis of suspended cells
  • Easy to use acquisition templates allow for multiple experiments per plate
  • Unattended operation and in-line bubble detection enables robust operation
  • Automatic process logging and error notification
  • Automatic sipper rinse between samples and <0.5% carryover
  • Automatic sample resuspension via aspiration
  • Advanced template function allows groups of wells to be defined for flexible plate configuration
  • Automated data analysis
  • Field installable by certified technicians

12 Image Channels

Up to 12 Images of Every Cell

The 12 Image Channel option significantly expands the experimental flexibility and analytical potential of the ImageStreamX Mk II Imaging Flow Cytometer by doubling the number of images per cell from six to twelve. This option is comprised of a second image detection system, including a filter wheel, inline filters, spectral decomposition assembly, and a proprietary charge-coupled device (CCD) camera.


  • Increase experimental capacity by utilizing a broader palette of fluorescent markers
  • Improve data quality by reducing or eliminating spectral crosstalk between detection channels
  • Perform functional assays of immunophenotypically-defined subpopulations
  • Improve throughput via multiplexing of experiments in a single tube or sample well
  • Field installable by certified technicians


60X/40X/20X Magnification

The MultiMag option provides 20X and 60X objective lenses, in addition to the standard 40X objective, for greater experimental flexibility and improved resolution. The 60X objective lens increases magnification for small objects, such as yeast and bacteria, and offers greater detail with mammalian and plant cells. The 20X objective lens provides an increased field of view for the imaging of large cells, such as epithelial cells.


  • Superior quality, high numerical aperture (NA) objectives yield crisp images
  • Convenient magnification changes via motorized objective mount
  • Crisp focus is ensured by advanced, patented auto focus technology

The Right Magnification for Your Work

60X magnification for higher resolution

20X magnification for large cells

Extended Depth of Field

A unique optical system upgrade for the ImageStreamX Mk II Cytometer keeps the depth of cell in focus without loss of fluorescence sensitivity. Now you can image FISH spots or other sub-cellular features, no matter where they lie in the cell.

Image More of the Cell in Focus

The extended depth of field (EDF™) option for the ImageStreamX Mk II Cytometer incorporates Wavefront Coding™ technology from CDM Optics, which is a combination of specialized optics and unique image processing algorithms, to project more structures within the cell into one crisp plane of focus.

EDF technology dramatically extends the depth of field, enabling new applications and improving the performance of existing applications – especially spot counting applications such as FISH, autophagy, and nuclear translocation.

Upgrade EDF package includes specialized optics and image processing algorithms:

  • Projects all features of a cell into a single plane of focus
  • Enables precise analysis of fluorescence in situ hybridization in suspension (FISHIS)

Amnis® AI Image Analysis Software

Amnis® AI incorporates the latest advancements in computer vision to create an intuitive and powerful image analysis tool.

Amnis AI leverages a number of recent advancements in machine learning, including computer-aided hand-tagging, clustering with object map plots, generation of a novel experimental model using deep learning convolutional neural networks (CNN), and confusion matrix tables with accuracy analytics.

Combined with Amnis high-throughput imaging systems, Amnis AI is an easy-to-use analysis tool, allowing researchers to harness the power of artificial intelligence to further their scientific discoveries.

IDEAS® Software

IDEAS® Software offers powerful, familiar tools for creating histograms and scatter plots. Click on any dot in a scatter plot to see the corresponding cell’s image. Numerical scoring of parameters such as size, shape, texture, colocalization, and intensity allow for quantification of visual data.

Expandable to Meet Your Needs

The IDEAS Analysis Software Package is extraordinarily robust, providing hundreds of features for every cell. IDEAS Software also allows you to create almost any new feature you may need from the basic feature set.

Fully Integrated Image and Statistical Data

In IDEAS Software, population statistics and imagery are completely integrated. Every dot on a scatter plot links directly to a cell’s images – click on the dot and you’ll see the corresponding cell. Click on an image to link to the feature values and points in the scatter plot. With its virtual sorting capability, IDEAS Software will show you all the images of a cell population you define.

An Efficient, Flexible Data Interface

The IDEAS interface integrates image data, plots, and statistics. The gallery shows you images of every cell, while the workspace gives you graphing tools to define and analyze cell populations and statistics tables to view population stats, as well as individual feature values.

Templates and Batch Processing

Once you’ve created an analysis scheme in IDEAS Software, you can save it as a template for batch processing future experiments, automated data analysis for high throughput experiments, or to share with colleagues.

Amnis imaging flow cytometry data files (.DAF/.CIF) are directly compatible with FCS Express Image Cytometry software (from DeNovo Software) for further data analysis.

Analysis Wizards

Pre-configured and optimized wizards are provided for many common applications.

Machine Learning for IDEAS 6.3

Machine Learning for IDEAS® 6.3

Luminex has released the latest version of the Amnis IDEAS 6.3 image analysis software, which now comes with the ability to activate the Machine Learning Module!

Machine Learning simplifies analysis by making it easier to classify cells based on specific parameters. To do this, the Machine Learning Module creates a unique classifier that helps researchers customize image-based analysis to their specific application—without the need for complex masking or feature generation. With Machine Learning, you can simply click on a cell of interest and the software will identify other cells with the same features.

In the example to the right, Machine Learning for IDEAS 6.3 was used to create three new classifiers to identify the overall shape of red blood cells in the dataset. Round, sickle, and sideways cells can be clearly enumerated using these three unique classifiers.

INSPIRE™ Software

Amnis imaging flow cytometers are equipped with INSPIRE™ Software that simplifies fundamental instrument operations. Instrument setup, calibration, and spectral compensation are straightforward and elementary. An intuitive interface makes data acquisition effortless.

An intuitive user interface provides easy-to-use instrument controls, real-time plotting and graphical gating, and images of every cell. The easy-to-use compensation wizard easily guides you through multi-color compensation.

21 CFR Part 11 Compliance Solutions

INSPIRE data acquisition software and IDEAS® data analysis software now both have 21 CFR part 11-enabled versions, making the Amnis® ImageStream®X Mk II and FlowSight® imaging flow cytometers fully compliant with the FDA’s 21 CFR Part 11 regulations. Combined with IQ/OQ (installation and operational qualification) offerings, the software ensures data integrity in accordance with the code of federal regulations.

The software uses a compliance server—with electronic signatures, validations, edit tracking, and more—to maintain completeness, consistency, and accuracy from data collection to processing on Amnis imaging flow cytometers.

Amnis ImageStreamX Mk II Imaging Flow Cytometer Resources

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Amnis ImageStreamX Mk II Imaging Flow Cytometer Training and Support

Amnis® ImageStream®X Mk II imaging flow cytometers combine the speed, sensitivity, and phenotyping capabilities of flow cytometry with the detailed imagery and functional insight of microscopy. Amnis imaging flow cytometers overcome the limitations of both techniques alone and open the door to a range of novel applications. To help you get the most from your Amnis imaging flow cytometers, our worldwide service organization offers a variety of service plans to maintain the performance and longevity of your instrument, while meeting your individual support needs.

As part of Luminex’s comprehensive flow cytometry solutions, our service packages offer post-warranty support and allow you to select the level of hardware, application, and software support that best fits your needs.

Instrument Service Plans1

  One-Year Instrument Warranty Complete Service Plan Intermediate Service Plan Basic Service Plan
Unlimited On-Site Service2    
Service Repair Visit3      
Annual Preventative Maintenance Service Visit4  
Repair Parts 20% Discount5 10% Discount
Trained and Authorized Service Technicians
Training Visit6      
Technical Support –
Telephone and Online
Priority Service Scheduling    
Computer Systems    
Firmware and Software Updates7  
Calibration Beads8      

Learn more about our service plans here.

Technical Support*

In addition to service support, our worldwide Technical Support Team can help you anytime by email or telephone. Their combined expertise enables them to answer questions beyond hardware and software, as well as help address any cellular analysis challenges you face. If your concern cannot be addressed by our Technical Support Team remotely, we will schedule a visit from a Field Service Engineer or an Applications Specialist.

* This service is only available for customers under contract or warranty.

The following services are outside of the Luminex service plans mentioned above and are subject to additional fees.

Application Training Visit

A three-day introductory training class on Amnis imaging flow cytometry systems is available at our training facility in Austin, Texas, USA. Alternatively, application training and post-sales application support is provided by Field Applications Scientists during an On-Site Training Visit. These highly qualified scientists have expertise in both flow cytometry and our entire portfolio of flow cytometers, kits, and reagents.

An Application Training Visit provides additional details regarding the functionality of the Amnis IDEAS® Software, using application-specific examples. Application Training Visits are available from one to five days in length, and may be tailored to the experience and needs of the customer.

Please consider an Application Training Visit if you need additional training on the system, software, or Amnis kits, as our instrument Field Applications Scientists are available to assist you. These additional training options are beyond the one Training Visit that is included under the Complete Service Plan.

Installation Qualification and Operation Qualification (IQ/OQ)

Our qualification services verify whether your instrument is working according to manufacturer’s specifications. This provides added peace of mind that your instrument is producing high-quality data. A Luminex Field Service Engineer will come to your site to perform the testing and provide the necessary documentation for regulatory compliance.

Instrument System Relocation

If you would like to relocate your Amnis imaging flow cytometer, please call Technical Support to schedule a Field Service Engineer to assist with the relocation. Moving the Amnis Imaging Flow Cytometer without proper procedures could negatively impact system performance and void your one-year instrument warranty, per Luminex’s terms and conditions of sale.

Please contact technical support for more information.

Additional Training & Services

Luminex customer service is committed to assisting you in obtaining optimum performance and value from your investment. Our customer service staff is available Monday-Friday in more than 15 countries worldwide, each with trained support personnel on hand to facilitate your needs.

Check out our Luminex Learning training events or contact [email protected] for training opportunities.

Luminex Customer Center

Login to the Luminex Customer Center Portal to take advantage of:

  • Access to hundreds of resources in our knowledgebase, including access to Luminex Learning
  • AMNIS IDEAS Software support
  • Service request forms for orders and support

Customers will need to register for an account through the Luminex Customer Center to access the new portal. Click here to register.

Customer Support

Email [email protected]
US 1-877-785-2323
Outside the US +1-512-381-4397
EMEA +31-(0)73-800-1900
China +86-21-802-31150
Japan +81-03-5545-7444

Optimize Your Fluorophore Selection

This Spectra Viewer can be used for any of our flow or imaging flow cytometers. Simply select your instrument, configuration, and fluorochomes to view the excitation and emission spectra specific to your instrument.

  1. Not all service plans are available in all countries. For more information, please contact Service Sales at [email protected]. Standard Luminex policy requires instruments with a lapse in service coverage be recertified by Luminex prior to commencing a service plan. The recertification fee includes travel and three hours of labor. Additional hours of labor and parts used during the recertification will be invoiced. Additional Services are not covered by any service plan
  2. Parts, labor, and travel are included for all service visits under the Complete Service Plan.
  3. Parts, labor, and travel are included for the first Service Repair Visit in addition to the one (1) Annual Preventative Maintenance Service Visit.
  4. Parts, labor, one (1) calibration kit, and travel are included for the one (1) Annual Preventative Maintenance Service Visit.
  5. Under the Intermediate Service Plan, subsequent repair visits include a parts discount of 20%. Labor and travel not included.
  6. One (1) Training Visit is provided under the Complete Service Plan.
  7. Software updates are limited to standard installed software (IDEAS, INSPIRE™, and ASSIST software) and additional purchased or subscribed Amnis software.
  8. One (1) Amnis Speedbead® Kit for ImageStream provided per year under the Complete Service Plan.

Amnis® ImageStream®X Mk II Imaging Flow Cytometer Ordering Information

Imaging System & Options

Product Part Number
Amnis® ImageStream®X Mk II Imaging Flow Cytometer System, Standard Bundle 100220
488 nm, 400 mW, High Power Blue Excitation Laser Upgrade 200111
375 nm, 70 mW, UV Excitation Laser 200119
405nm, 120mW, Violet Excitation Laser 200121
375 nm, 70 mW + 405 nm, 175 mW, UV+Violet Dual Beam Excitation Laser 200129
642 nm, 150 mW, Red Excitation Laser 200136
561 nm,200 mW, Yellow/Green Excitation Laser 200141
592nm,300 mW, Orange/Yellow Excitation Laser 200151
AutoSampler, 96 Well Plate Loader 200161
12 Imaging Channels 200181
MultiMag – 60X, 40X, and 20X 200191
Extended Depth of Field (EDF) 200201
Analysis Workstation for Large Image Data files 200101

Kits & Reagents

Product Category Part Number
Amnis SpeedBead® Kit Calibration 400041
Amnis NFkB Translocation Kit Cell pathways ACS10000
Amnis Protein Aggregate & Silicone Oil Detection Kit Drug discovery APH10001


Product Part Number
Amnis ImageStreamX Mk II Complete Maintenance and Service Agreement SLA-ISXMKII-COMPLETE
Amnis ImageStreamX Mk II Intermediate Maintenance and Service Agreement SLA-ISXMKII-INTERMED
Amnis ImageStreamX Mk II Basic Maintenance and Service Agreement SLA-ISXMKII-BASIC
Introductory Training, Amnis Imaging Flow Cytometry Systems, at Luminex Office – 3 days (per person) 500200
Amnis ImageStream System Training, On-Site – 1 day (up to 5 people) 500200-1
Amnis ImageStream System Training, On-Site – 2 consecutive days (up to 5 people) 500200-2
Amnis ImageStream System Training, On-Site – 3 consecutive days (up to 5 people) 500200-3
Amnis ImageStream System Training, On-Site – 4 consecutive days (up to 5 people) 500200-4
Amnis ImageStream System Training, On-Site – 5 consecutive days (up to 5 people) 500200-5
IQ-OQ Amnis ImageStreamX Mk II, On-Site 603222
Amnis ImageStreamX Mk II Installation 610303