Download Regions of interest properties Nucleus properties Cell properties

Definiens Tissue Studio 3 provides morphological fingerprints and
biomarker expression profiles per slides, regions, vessels, cells or
sub-cellular compartments. These detailed readouts can, for example, be
correlated to patient outcome or therapy response to identify clinically
relevant predictors. The default export contains the most common
readouts at slide and region levels. Additional statistical data or data for
individual objects (such as vessels, nuclei and cells) can be obtained
with the customizable export
Default Export
Regions of interest properties
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Absolute and percentage area for each ROI class
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Average intensity for each ROI class
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Number of ROI objects
Nucleus properties
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Histological score
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Positive index
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Allred score (with proportion score and intensity score)
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Number and percentage of negative and positive nuclei with low/medium/high staining intensity
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Number and percentage of small/medium/large nuclei
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Average nucleus intensity
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Colocalization of biomarkers for fluorescence labels
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Pearsons and Manders correlation coefficients for fluorescence labels
Cell properties
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Histological score
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ASCO/DAKO HER-2 Score
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Number and percentage of negative cells and cells with low/medium/high staining intensity
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Number and percentage of small/medium/large cells
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Number and percentage of HER-2 0, 1+, 2+ 3,+ cells
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Average intensity in the membrane, cytoplasm or complete cell
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Average membrane/cytoplasm intensity
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Average cell size
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Colocalization or coexpression in different compartments for fluorescence labels
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Pearsons and Manders correlation coefficients for fluorescence labels
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Average and median vessel wall thickness
Vessels
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Vessel density (with and without lumen)
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Number and percentage of small/medium/large vessels
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Number and percentage of vessels with negative/low/medium/high staining intensity in vessel
wall
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Average and median vessel size
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Average and median vessel wall thickness
Marker area
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Histological score
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Absolute and percentage area of hematoxylin and up to two IHC markers
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Absolute and percentage area of areas with low/medium/high staining intensity
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Average staining intensities
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Colocalization for dual IHC and fluorescence labels
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Pearsons and Manders correlation coefficients for fluorescence labels
Customizable Export
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Area
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Length
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Length/width
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Number of pixels
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Width
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Circularity
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Compactness
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Density
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Elliptic Fit
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Ellipticity
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Roundness
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Shape index
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Distance to scene border
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Mean Brown Chromogene Intensity
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Mean Hematoxylin Intensity
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Optical Density
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Mean Layer 1
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Mean Layer 2
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Mean Layer 3
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Mean Layer 4
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Mean Layer 5
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Mean Layer 6
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Mean Layer 7
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Mean Layer 8
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Mean Layer 9
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Mean Layer 10
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Mean Layer 11
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Mean Layer 12
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Standard deviation Layer 1
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Standard deviation Layer 2
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Standard deviation Layer 3
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Standard deviation Layer 4
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Standard deviation Layer 5
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Standard deviation Layer 6
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Standard deviation Layer 7
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Standard deviation Layer 8
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Standard deviation Layer 9
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Standard deviation Layer 10
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Standard deviation Layer 11
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Standard deviation Layer 12
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Ratio Layer 1
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Ratio Layer 2
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Ratio Layer 3
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Ratio Layer 4
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Ratio Layer 5
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Ratio Layer 6
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Ratio Layer 7
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Ratio Layer 8
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Ratio Layer 9
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Ratio Layer 10
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Ratio Layer 11
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Ratio Layer 12
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Cell Cytoplasm/Nucleus Intensity Ratio
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Cell Membrane/Cytoplasm Contrast
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Cytoplasm Subobject Brown Chromogen
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Cytoplasm Subobject Optical Density
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Membrane Subobject Brown Chromogen
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Membrane Subobject Optical Density
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Nucleus Subobject Brown Chromogen
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Nucleus Subobject Optical Density
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Cell Membrane/Cytoplasm Intensity Ratio
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Cytoplasm Subobject Intensity
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Cytoplasm Subobject Intensity
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Membrane Subobject Intensity
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Membrane Subobject Intensity < Membrane layer>
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Number of Background
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Number of Cell
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Number of Cell Colocalization Subclasses
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Number of Cell HER2 0
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Number of Cell HER2 1+
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Number of Cell HER2 2+
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Number of Cell HER2 3+
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Number of Cell High
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Number of Cell Large
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Number of Cell Low
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Number of Cell Markers 1 and 2 colocalized
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Number of Cell Markers 1 and 3 colocalized
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Number of Cell Markers 1,2 and 2 colocalized
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Number of Cell Markers 2 and 3 colocalized
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Number of Cell Medium
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Number of Cell Negative
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Number of Cell Small
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Number of Cell not colocalized
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Number of Cytoplasm
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Number of Marker 1
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Number of Marker 2
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Number of Marker 3
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Number of Hematoxylin
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Number of Marker Areas
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Number of Markers 1 and 2
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Number of Markers 1 and 3
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Number of Markers 1,2 and 3
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Number of Markers 2 and 3
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Number of Marker High
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Number of Marker Low
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Number of Marker Medium
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Number of Marker Stain (IHC)
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Number of Membrane
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Number of Membrane none
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Number of Membrane strong
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Number of Membrane weak
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Number of Nucleus
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Number of Nucleus High
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Number of Nucleus Large
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Number of Nucleus Low
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Number of Nucleus Medium
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Number of Nucleus Negative
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Number of Nucleus Positive
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Number of Nucleus Small
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Number of Nucleus colocalization subclasses
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Number of Nucleus Markers 1 and 2 colocalized
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Number of Nucleus Markers 1 and 3 colocalized
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Number of Nucleus Markers 1,2 and 3 colocalized
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Number of Nucleus Markers 2 and 3 colocalized
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Number of Nucleus not colocalized
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Number of Vessel
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Number of Vessel High
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Number of Vessel Large
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Number of Vessel Low
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Number of Vessel Lumen
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Number of Vessel Medium
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Number of Vessel None
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Number of Vessel Small
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Number of Vessel Wall
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Number of Vessel with Lumen
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Number of Vessel without Lumen
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Number of unclassified
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Border to Background
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Border to Cell
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Border to Cell Colocalization Subclasses
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Border to Cell HER2 0
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Border to Cell HER2 1+
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Border to Cell HER2 2+
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Border to Cell HER2 3+
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Border to Cell High
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Border to Cell Large
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Border to Cell Low
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Border to Cell Markers 1 and 2 colocalized
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Border to Cell Markers 1 and 3 colocalized
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Border to Cell Markers 1,2 and 2 colocalized
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Border to Cell Markers 2 and 3 colocalized
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Border to Cell Medium
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Border to Cell Negative
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Border to Cell Small
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Border to Cell not colocalized
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Border to Cytoplasm
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Border to Marker 1
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Border to Marker 2
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Border to Marker 3
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Border to Hematoxylin
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Border to Marker Areas
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Border to Markers 1 and 2
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Border to Markers 1 and 3
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Border to Markers 1,2 and 3
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Border to Markers 2 and 3
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Border to Marker High
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Border to Marker Low
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Border to Marker Medium
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Border to Marker Stain (IHC)
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Border to Membrane
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Border to Membrane none
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Border to Membrane strong
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Border to Membrane weak
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Border to Nucleus
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Border to Nucleus High
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Border to Nucleus Large
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Border to Nucleus Low
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Border to Nucleus Medium
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Border to Nucleus Negative
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Border to Nucleus Positive
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Border to Nucleus Small
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Border to Nucleus colocalization subclasses
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Border to Nucleus Markers 1 and 2 colocalized
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Border to Nucleus Markers 1 and 3 colocalized
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Border to Nucleus Markers 1,2 and 3 colocalized
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Border to Nucleus Markers 2 and 3 colocalized
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Border to Nucleus not colocalized
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Border to Vessel
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Border to Vessel High
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Border to Vessel Large
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Border to Vessel Low
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Border to Vessel Lumen
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Border to Vessel Medium
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Border to Vessel None
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Border to Vessel Small
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Border to Vessel Wall
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Border to Vessel with Lumen
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Border to Vessel without Lumen
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Border to unclassified
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Rel. border to Background
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Rel. border to Cell
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Rel. border to Cell Colocalization Subclasses
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Rel. border to Cell HER2 0
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Rel. border to Cell HER2 1+
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Rel. border to Cell HER2 2+
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Rel. border to Cell HER2 3+
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Rel. border to Cell High
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Rel. border to Cell Large
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Rel. border to Cell Low
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Rel. border to Cell Markers 1 and 2 colocalized
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Rel. border to Cell Markers 1 and 3 colocalized
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Rel. border to Cell Markers 1,2 and 2 colocalized
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Rel. border to Cell Markers 2 and 3 colocalized
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Rel. border to Cell Medium
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Rel. border to Cell Negative
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Rel. border to Cell Small
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Rel. border to Cell not colocalized
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Rel. border to Cytoplasm
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Rel. border to Marker 1
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Rel. border to Marker 2
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Rel. border to Marker 3
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Rel. border to Hematoxylin
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Rel. border to Marker Areas
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Rel. border to Markers 1 and 2
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Rel. border to Markers 1 and 3
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Rel. border to Markers 1,2 and 3
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Rel. border to Markers 2 and 3
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Rel. border to Marker High
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Rel. border to Marker Low
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Rel. border to Marker Medium
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Rel. border to Marker Stain (IHC)
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Rel. border to Membrane
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Rel. border to Membrane none
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Rel. border to Membrane strong
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Rel. border to Membrane weak
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Rel. border to Nucleus
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Rel. border to Nucleus High
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Rel. border to Nucleus Large
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Rel. border to Nucleus Low
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Rel. border to Nucleus Medium
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Rel. border to Nucleus Negative
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Rel. border to Nucleus Positive
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Rel. border to Nucleus Small
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Rel. border to Nucleus colocalization subclasses
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Rel. border to Nucleus Markers 1 and 2 colocalized
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Rel. border to Nucleus Markers 1 and 3 colocalized
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Rel. border to Nucleus Markers 1,2 and 3 colocalized
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Rel. border to Nucleus Markers 2 and 3 colocalized
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Rel. border to Nucleus not colocalized
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Rel. border to Vessel
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Rel. border to Vessel High
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Rel. border to Vessel Large
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Rel. border to Vessel Low
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Rel. border to Vessel Lumen
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Rel. border to Vessel Medium
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Rel. border to Vessel None
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Rel. border to Vessel Small
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Rel. border to Vessel Wall
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Rel. border to Vessel with Lumen
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Rel. border to Vessel without Lumen
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Rel. border to unclassified
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Distance to ROI 1
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Distance to ROI 2
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Distance to ROI 3
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Distance to ROI 4
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Distance to ROI 5
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Distance to ROI 6
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Distance to ROI 7
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Distance to ROI 8
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Number of Cytoplasm
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Number of Membrane
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Number of Nucleus
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Number of Vessel Lumen
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Number of Vessel Wall
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Area of Cytoplasm
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Area of Membrane
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Area of Nucleus
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Area of Vessel Lumen
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Area of Vessel Wall
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Rel. area of Cytoplasm
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Rel. area of Membrane
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Rel. area of Nucleus
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Rel. area of Vessel Lumen
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Rel. area of Vessel Wall
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Classified as Background
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Classified as Cell
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Classified as Cell Colocalization Subclasses
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Classified as Cell HER2 0
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Classified as Cell HER2 1+
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Classified as Cell HER2 2+
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Classified as Cell HER2 3+
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Classified as Cell High
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Classified as Cell Large
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Classified as Cell Low
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Classified as Cell Markers 1 and 2 colocalized
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Classified as Cell Markers 1 and 3 colocalized
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Classified as Cell Markers 1,2 and 2 colocalized
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Classified as Cell Markers 2 and 3 colocalized
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Classified as Cell Medium
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Classified as Cell Negative
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Classified as Cell Small
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Classified as Cell not colocalized
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Classified as Cytoplasm
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Classified as Marker 1
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Classified as Marker 2
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Classified as Marker 3
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Classified as Hematoxylin
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Classified as Marker Areas
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Classified as Markers 1 and 2
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Classified as Markers 1 and 3
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Classified as Markers 1,2 and 3
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Classified as Markers 2 and 3
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Classified as Marker High
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Classified as Marker Low
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Classified as Marker Medium
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Classified as Marker Stain (IHC)
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Classified as Membrane
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Classified as Membrane none
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Classified as Membrane strong
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Classified as Membrane weak
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Classified as Nucleus
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Classified as Nucleus High
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Classified as Nucleus Large
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Classified as Nucleus Low
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Classified as Nucleus Medium
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Classified as Nucleus Negative
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Classified as Nucleus Positive
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Classified as Nucleus Small
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Classified as Nucleus colocalization subclasses
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Classified as Nucleus Markers 1 and 2 colocalized
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Classified as Nucleus Markers 1 and 3 colocalized
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Classified as Nucleus Markers 1,2 and 3 colocalized
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Classified as Nucleus Markers 2 and 3 colocalized
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Classified as Nucleus not colocalized
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Classified as Vessel
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Classified as Vessel High
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Classified as Vessel Large
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Classified as Vessel Low
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Classified as Vessel Lumen
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Classified as Vessel Medium
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Classified as Vessel None
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Classified as Vessel Small
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Classified as Vessel Wall
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Classified as Vessel with Lumen
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Classified as Vessel without Lumen
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unclassified
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Colocalization Manders Coefficient 1 (Marker 1 and 2)
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Colocalization Manders Coefficient 1 (Marker 1 and 3)
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Colocalization Manders Coefficient 1 (Marker 2 and 3)
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Colocalization Manders Coefficient 2 (Marker 1 and 2)
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Colocalization Manders Coefficient 2 (Marker 1 and 3)
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Colocalization Manders Coefficient 2 (Marker 2 and 3)
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Colocalization No. Colocalized Pixel (Marker 1 and 2)
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Colocalization No. Colocalized Pixel (Marker 1 and 3)
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Colocalization No. Colocalized Pixel (Marker 2 and 3)
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Colocalization Pearson Coefficient (Marker 1 and 2)
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Colocalization Pearson Coefficient (Marker 1 and 3)
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Colocalization Pearson Coefficient (Marker 2 and 3)