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Advanced Astrocyte Segmentation and Overlap Analysis in Multi-channel Imaging

This study focuses on the extraction, classification, and quantification of glial cells, emphasizing accurate segmentation techniques for overlapping astrocytes. It includes methods for identifying seed points to initiate segmentation and defining termination criteria for overlapping structures. The research measures astrocyte overlap with vessels across multiple channels, calculating overlap percentages and relating it to cell groupings. Image preprocessing techniques are utilized, including channel splitting and noise reduction, with the development of a custom plugin to enhance overlap analysis.

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Advanced Astrocyte Segmentation and Overlap Analysis in Multi-channel Imaging

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  1. Astrocyte Analysis Jing Mao

  2. Goals • Extract, classify and count individual glial cells • Find seed points to start segmentation • Terminate segmentation for overlapping glial cells • Measure degree of astrocyte overlap with vessels in secondary channel • Percentage of total cell overlap • What part of the cell overlaps • Relate this to groupings of cells

  3. Preprocess • Image-stack-tools-stack splitter • Split three channels

  4. Preprocess Channel 1 Channel 2

  5. Preprocess • Using existing plugin adaptive Thr • Extract features from background

  6. Preprocess • Process-Noise-Despeckle • Analyze-Analyze Particles Channel 1 Channel 2

  7. Analyze • Build plugin to compute the percentage of cell overlap 78 slices height width Channel 1 Channel 2

  8. Analyze Channel 1 Channel 2

  9. Two channels Total slices Width and height for each slice Total number of pixels with white in channel 1 and 2 Overlap in channel 1 and channel 2 Mark overlap area to red

  10. Results

  11. Results Cell Overlap in Channel 1

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