A multiplex IMC image with high background noise.
#10191
Cell Detection AI (IMC)
This Quickstart APP segments cells in images captured by imaging mass cytometry (IMC), such as those acquired by the Hyperion XTi imaging system by Standard Biotools. Despite the high background noise in IMC images, this APP segments cells based on DNA channels, ensuring high accuracy and precision.
As with all of our Quickstart APPs, your image analysis can be scaled by queueing APPs to run in the background on an unlimited number of images—this is possible with the “batch analysis” feature available on both Discovery and Phenoplex™.
Working with multimodal data sets or TMAs? No problem. Run this APP after using the Tissuealign™ feature to align your images at the cellular level, or the Tissuearray™ feature to de-array your tissue cores.
After analysis is complete, you may explore your results with the Phenoplex™ Guided Workflow or the Data Exploration and QC tool (available on Discovery and Phenoplex™).
Segmented cells with the 10191 Quickstart APP.
Details
Quantitative Output variables
- Total cell count
- Biomarker intensity for the nucleus, cell body, and entire cell
Workflow
After loading your image, follow these steps.
Step 1: Open the “10191 – Cell Detection, AI (IMC)” APP.
Step 2: Select a region of interest, or skip to next step.
Step 3: Click “Run APP.” A dialogue box will appear where you must set the input channel to match the iridium (DNA1 and DNA2) channels. Alternatively, perform batch analysis to place this APP in a queue and keep working on other images.
