Unprocessed view of GeoMx® DSP image.
#10192
GeoMx® DSP Nuclei Detection
Analyzing images acquired through the GeoMx® Digital Spatial Profiling method by Bruker is now a whole lot easier. This Quickstart APP can be performed after finding your regions of interest, and only requires a click to accurately and precisely segment nuclei in your images.
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 nuclei in GeoMx® DSP image.
Zoomed in GeoMx® DSP image before nuclei segmentation.
Precise segmentation of zoomed in image.
Details
Quantitative Output variables
- Total number of nuclei
- Biomarker intensity for each nucleus
Workflow
After loading your image, follow these steps:
Step 1: Open the “10192 – GeoMx DSP Nuclei Detection” 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 channel for your nuclei. Once saved, you may perform batch analysis to queue this APP and keep working on other images
