Tomocube

Cell and Organelle Phenotyping

Cell, nucleus, mitochondria, and lipid droplets are segmented from the same label-free image, so every cell carries its own organelle readouts, ready to compare across drugs and time.

Because the contrast is the refractive index itself, there is no dye to load and nothing to fix, so the same cells can be imaged again later. Each organelle is an object of its own, measured on its own and linked to the cell it sits in, so organelle content per cell comes out alongside the cell's own shape, dry mass, and RI.

Tracking and Cell Dynamics

TomoAnalysis 3.0 tracks cells and nuclei frame by frame and keeps their lineage through division. Every track becomes numbers you can plot: speed, displacement, and track length.

Set the linking rules once and apply them to the whole time-lapse. Tracks and lineage trees stay editable, so a missed link or a wrong division can be fixed by hand before you export. Every measurement keeps its track ID, so any per-cell feature can also be followed over time.

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4D Phenotypic Drug Discovery

Label-free 3D images taken over time show how each compound changes cells. TomoAnalysis 3.0 builds a phenotypic profile for each compound and dose, ranks compounds by their distance from vehicle, and follows how the population shifts from one time point to the next.

Every dose runs through one pipeline in Batch, so all wells are segmented and measured the same way. Cell, nucleus, and lipid droplet features are then compared with vehicle for each compound and dose, and a condition heatmap shows which compounds move the cells and from which dose.

Organoid Analysis

One pipeline segments the whole organoid, its cell layer, its lumen, and every nucleus from a single label-free image. Each compartment is measured on its own, so a dose effect can show up inside the organoid before its outline changes.

Nothing is stained or fixed, so organoids can be imaged again after treatment. Nucleus counts, cell layer volume, and lumen volume come out per organoid and per compartment, ready to plot against dose across a plate.

Correlative Fluorescence

HT and fluorescence (FL) channels are read from the same dataset, so a marker and the refractive index meet object by object. Measure FL inside HT objects, let a marker define regions, or use an FL readout as each object's class.

Because the two channels stay aligned object by object, a stain can also check a label-free result: how well an HT segmentation or class agrees with the marker on the same nuclei.

1. 1HT finds every nucleus.
2. 2Acridine orange (green) stains live cells, propidium iodide (red) dead ones.
3. 3Each HT nucleus takes the stain inside it: live in white, dead in magenta.