The flashy edge of multiplexed imaging gets the headlines. CODEX, MIBI, IMC. 40 plus markers at a time. These are real and important, but they are not how most biology gets done.

The actual workhorse is the 2-to-4 channel IF panel. DAPI plus two or three markers, chosen to answer one specific question. Is this protein expressed in this cell type? Does the compound shift the population? Do markers A and B colocalize? These experiments run in every cell biology lab, every day, and they power most of the figures in most of the papers.

The analysis problem is the same everywhere in microscopy: extract per-cell measurements across channels, then reason about multi-parametric data. The conceptual framework was developed by flow cytometry: gate populations on 2D scatter plots, define subpopulations by combinations of markers, report percentages per gate.

Cytely brings that flow-style gating to images. Segment cells, measure all channels and morphology features per cell, gate interactively on any 2D combination. Every gated cell links back to its position in the image.

The 2-to-4 channel IF panel is the reason every Cytely workflow drops out of the same platform without per-experiment scripting.

How the assay runs

Segment cells → measure all channel intensities and morphology per cell → explore multi-parametric relationships via interactive gating.

What you provide

  • Ch1: DAPI
  • Ch2-4+: marker channels (IF, fluorescent tags, or multiplexed stains)

What you get

  • Per-cell intensity for each marker
  • Morphology features
  • Co-expression profiles
  • Population-level distributions

Ready to run

2-4 channel IF panels, immune phenotyping panels, multi-target drug studies, any combination of nuclear + cytoplasmic + membrane markers.

Inquire for support

Spectral unmixing, cyclic IF (sequential staining rounds), >4 simultaneous channels.

Explore the Multiplex Imaging Analysis assay →