ConductVision Organoid Monitor

Follow each organoid through fusion and fragmentation

In a pilot, ConductVision follows each organoid under its own ID and logs each fusion, fragmentation or collapse with a video clip.

Plan a pilotWhat a pilot tracks
Two microscope frames of the same organoid culture at 0 and 92 hours, with each organoid outlined and numbered and the same numbers on the same organoids as they grow.
Adapted from Matthews et al. 2022 · CC BY 4.0

Measures

What a pilot tracks

Brightfield image of cystic pancreatic cancer organoids in an extracellular matrix dome, each filled with a color where the analysis outlined it as one object.
Adapted from Deben et al. 2023 · CC BY 4.0

Identity

  • An ID for every visible organoid, built from its plate, well and organoid number
  • Position, outline and confidence in every frame
Time-lapse microscope image of chicken embryo intestinal organoids in a gel, with dashed lines tracing how far six of them moved during the first day of culture.
Adapted from Pierzchalska et al. 2019 · CC BY 4.0

Movement

  • Position, distance and speed
  • Direction, rotation and drift
  • Movement relative to neighbors

Before measuring movement, a pilot aligns the frames so camera and plate motion do not count as organoid movement.

A microscope image of organoids, some of them touching, beside the same field with each organoid filled in its own color by OrganoID, a published tool, the touching ones included.
Adapted from Matthews et al. 2022 · CC BY 4.0

Contact

  • Distance to the nearest neighbor
  • Contact events and how long they last
  • Clustering and aggregates
Time-lapse microscope images of chicken embryo intestinal organoids in a gel, in which two organoids, outlined in red and yellow, move together and fuse into one.
Adapted from Pierzchalska et al. 2019 · CC BY 4.0

Fusion

  • When two organoids become one structure
Brightfield images of airway organoids 0, 24 and 48 hours after infection with a respiratory virus, breaking up over that time, beside mock-infected organoids at 48 hours.
Adapted from Stroulios et al. 2022 · CC BY 4.0

Fragmentation

  • Splitting, shedding and breakup
Phase-contrast images of one polycystic kidney disease organoid cyst given 30 µM everolimus on days 0, 1, 3 and 14, shrinking from a round cyst to a small dark mass by day 1.
Adapted from Gulieva et al. 2025 · CC BY 4.0

Structural collapse

  • An abrupt loss of area, roundness or boundary
  • Sudden flattening, texture change or disappearance

Each structural collapse comes with its clip and the measurements from before and after it.

Between time points

What happens between time points

Hof and colleagues saw organoids migrate, rotate and fuse with neighbors over up to 7 days of imaging.1 Images taken days apart miss those events and the order they came in.

Over a four-day microscope time-lapse, OrganoID correctly matched over 89% of the organoids it identified from one time step to the next.2 Your pilot checks ConductVision's own tracking and reports a confidence for every track.

Microscope images of colorectal cancer organoids at 52, 82, 88 and 94 hours of culture, in which a collapsed organoid swelled again and fused with its neighbor into one.
Adapted from Yan et al. 2024 · CC BY 4.0

Lineage

Fusion and fragmentation keep their history

When two organoids fuse, the merged structure gets a new ID that records both parents. When an organoid breaks apart, each fragment records the organoid it came from. The original IDs stay in the data, with their measurements from before the event.

Unusual events

Unusual events, saved with clips

A pilot flags a change that departs from the organoid's own history, its neighbors, matched controls or the rest of the experiment. Each flag links to its video clip. When an event starts, such as an organoid fragmenting, the camera images that well more often until it ends.

Camera specification

The camera tracking needs

Tracking needs every organoid in view at every time point.

Brightfield image of most of one well of a 384-well plate, crowded with cystic patient-derived organoids of many sizes.
Adapted from Deben et al. 2023 · CC BY 4.0

Field of view

  • Each whole well, in one image or in tiles joined into one

With the whole well in view, an organoid that moves stays in the record.

Microscope images of the same patient-derived intestinal organoids when forskolin was added and one hour later, when their lumens had filled with fluid.
Adapted from Lefferts et al. 2024 · CC BY 4.0

Timing

  • A full stack of every well every 5 to 15 minutes
  • An image a minute of a well while an event lasts, without delaying the other wells

OrganoID tracked organoids in images taken every 2 hours, and its tracking accuracy held when frames were dropped to simulate a 12-hour interval.2 So tracking does not set the interval, and a pilot images every 5 to 15 minutes to date events and responses closely.

Deliverables

What the pilot delivers

  • An ID and a track for every visible organoid
  • A record of every fusion and fragmentation, with parent and new IDs
  • A time-stamped event log
  • A video clip for every event

Questions labs ask

Does a structural collapse mean the organoid died?

Not necessarily. The camera sees the change in shape. Whether the organoid died needs your own assay.

References

  1. Hof L, Moreth T, Koch M, et al. (2021). Long-term live imaging and multiscale analysis identify heterogeneity and core principles of epithelial organoid morphogenesis. BMC Biology.
  2. Matthews JM, Schuster B, Kashaf SS, et al. (2022). OrganoID: A versatile deep learning platform for tracking and analysis of single-organoid dynamics. PLOS Computational Biology.
  3. Deben C, De La Hoz EC, Compte ML, et al. (2023). OrBITS: label-free and time-lapse monitoring of patient derived organoids for advanced drug screening. Cellular Oncology.
  4. Pierzchalska M, Panek M, Grabacka M (2019). The migration and fusion events related to ROCK activity strongly influence the morphology of chicken embryo intestinal organoids. Protoplasma.
  5. Stroulios G, Brown T, Moreni G, et al. (2022). Apical-out airway organoids as a platform for studying viral infections and screening for antiviral drugs. Scientific Reports.
  6. Gulieva RE, Ahmadvand P, Freedman BS (2025). A novel rapalog shows improved safety vs. efficacy in a human organoid model of polycystic kidney disease. Stem Cell Reports.
  7. Yan H, Wu T, Li X, et al. (2024). Establishment of the microscope incubation system and its application in evaluating tumor treatment effects through real-time live cellular imaging. Frontiers in Bioengineering and Biotechnology.
  8. Lefferts JW, Kroes S, Smith MB, et al. (2024). OrgaSegment: deep-learning based organoid segmentation to quantify CFTR dependent fluid secretion. Communications Biology.

Track organoid events in a pilot

Tell us your organoid type, your plates and the events you want caught.

Plan a pilotResearch and accuracy