FLEX WORKFLOWS
Integrated workflows for
single-cell discovery
Combine live-cell imaging, functional assays, sequencing, and integrated analysis within flexible microscope-compatible workflows.
Integrated workflows for
Scalable options for imaging, sequencing, and integrated same-cell analysis.
FLEX Imaging Consumables
Run live-cell imaging assays on your existing microscope
Starting at ~$100/sample
Microscope-compatible consumable format
Compatible with standard live-cell microscopy
Ideal for assay development and pilot studies
Imaging + Sequencing
You image in your lab, we handle sequencing and analysis
Integrated workflows from ~$2K/sample
Perform imaging assays in your lab
Return the FLEX consumable to Flexomics
Receive linked imaging + sequencing analysis
Discovery Collaborations
Co-designed functional single-cell discovery programs
Pilot collaborations from ~$5K
Co-design experiments and workflows
End-to-end assay, imaging, and sequencing
Integrated data analysis and interpretation
Collaborative Pilot Program
Have a new application in mind?
We are currently accepting proposals for the Flexomics Collaborative Pilot Program. Selected projects receive subsidized access to FLEX technology and direct collaboration with the Flexomics team.
Applications due July 14, 2026.
Imaging & Assays
- Easy translation of staining workflows
- Live-cell imaging and time-course assays
- Cell-cell interaction and immune-cell tracking
- Cytokine secretion assays
Sequencing Readouts
- Whole-transcriptome analysis
- Targeted RNA panels
- Immune repertoire sequencing
- Long-read compatible workflows
Analysis
- Same-cell imaging + sequencing linkage
- Time-course analysis
- FLXplorer visualization
- Custom analysis support
Common Questions
Need a custom workflow or application? Contact us to discuss your project.
What cell types are compatible with the FLEX chip?
The FLEX platform supports a wide range of biological samples, including:
- Suspension cell lines
- Primary immune cells (T cells, B cells, PBMCs, etc.)
- Adherent cell lines
- Co-culture systems
- Fixed-cell workflows
Cells can be cultured, assayed, and imaged directly on the FLEX chip using standard laboratory workflows.
If you have a specific sample type or assay in mind, contact us to discuss compatibility and workflow design.
Can I use the FLEX chip with my existing microscope?
Yes. FLEX is designed to work with standard inverted fluorescence microscopes.
Recommended imaging is typically performed at 4X, 10X or 20X magnification, although workflows can also be performed at higher magnifications depending on assay requirements.
Validated microscope platforms include:
- Nikon Ti2-E
- Leica DMi8
- Zeiss LSM 900
- EVOS S1000
- EVOS M7000
- EVOS FL Auto 2
- Keyence BZ-X700
- Zaber Nucleus
Contact us if you would like to discuss compatibility with your imaging system.
What assays can I perform on the FLEX chip?
What assays can I perform on the FLEX chip?
The FLEX platform supports a wide range of fluorescence-based live-cell and fixed-cell assays. Our team will work with you to adapt and optimize your workflow for use on the FLEX chip.
Common applications include:
• Cell surface marker staining and immunophenotyping
• Cytokine secretion and cytokine capture assays
• Cell-cell interaction studies
• Cell proliferation and cytotoxicity assays
• Drug response profiling
• Functional immune cell screening
• Time-course and longitudinal studies
Since cells can be cultured directly on the chip, assays may also be combined with:
• Drug treatments and perturbations
• Multiple imaging timepoints
• Co-culture experiments
• Multiplexed sample analysis
FLEX is designed to connect cellular phenotype, function, and imaging measurements with downstream sequencing and molecular profiling from the same cells.
Have a specific assay in mind? Contact us to discuss compatibility and workflow design.
Do I need specialized equipment to use FLEX?
No.
FLEX is designed to integrate into existing laboratory workflows. Experiments can be performed using standard incubators, fluorescence microscopes, and cell culture equipment commonly found in research laboratories.
No dedicated Flexomics instrument is required.
What is the imaging resolution of the FLEX chip?
FLEX is optimized for cell-level and population-level fluorescence imaging workflows.
Most users perform experiments using 10X or 20X objectives, which provide excellent throughput and cell segmentation performance. Higher magnifications, including 40X, may be used for specific applications depending on imaging requirements.
Contact us if your workflow requires sub-cellular imaging or specialized microscopy modalities.
Can I perform sequencing at my lab (or with my preferred third party)?
Yes.
Flexomics offers multiple workflow options:
- Perform imaging and sample preparation in your laboratory and return consumables to Flexomics for sequencing and analysis.
- Perform imaging locally and receive sequencing-ready materials for sequencing at your preferred provider.
- Work with Flexomics for end-to-end workflow execution, including imaging, sequencing, and analysis.
We are happy to discuss the option that best fits your laboratory infrastructure and project goals.
Can I receive the raw data to perform analysis in-house?
Typically, Flexomics performs pre-processing of imaging and sequencing outputs to link each datapoint to its well-of-origin. You receive an integrated data csv containing fluorescence intensity values and mapped reads for each unique well ID.
If necessary, we can work with your bioinformatics team to generate data linkage tools to allow you to perform pre-processing in-house. Contact us to discuss options.
