enhanced colocalization
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Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
1
Enhanced Colocalication Tool
Enhanced Colocalization
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
2
Enhanced Colocalization
The new colocalization Dialog
Scattergram, image display and data table are interactively linked
Scattergram
Data table
Image display
Tools
NEW
NEW
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
3
Enhanced Colocalization
Interactive link between scattergram and image display
- Select ROIs in scattergram and view corresponding pixels in image display
Color assignment for pixels in ROI(RGB or overlay)
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
4
Enhanced Colocalization
Interactive link between scattergram and image display
- Select ROIs in image display and view corresponding pixels in scattergram
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
5
Enhanced Colocalization
Scatterregion 3:Colocalizing pixels
Scatterregion 1:Pixels in channel 1 only
Scatterregion 2:Pixels in channel 1 only
Scatterregion 4:Sub-threshold pixels(background intensities)
Scattergram and thresholding with crosshair
Crosshair
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
6
Enhanced Colocalization
Thresholding with crosshair
Drag crosshair in scattergram Use Intensity Threshold dialog
- move slider or- type in intensity values or- define ROI in image display and use „Set from Image ROIs“ (system will calculate mean intensities + 2x standard deviation and set crosshair accordingly)
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
7
Enhanced Colocalization
Thresholding with crosshair
Colors may be assigned to pixels in scatter regions 1-3 and displayed in the image display as „RGB“ or „overlay“
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
8
Enhanced Colocalization
Data Table
Quantitative Parameters:- No. of pixels in image ROI or scatter region- Area / relative area of image ROI or scatter region- Mean intensities / SD within image ROI or scatter region- Colocalization coefficients - Weighted colocalization coefficients- Overlap coefficient after Manders- Correlation coefficients (R and R2)
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
9
Enhanced Colocalization
Data Table
Quantitative Parameters:- Colocalization coefficients
Relative number of colocalizing pixels in channel 1 or 2, respectively, as compared to the total number of pixels above threshold.
Value range 0 – 1 (0: no colocalization, 1:all pixels colocalize)
All pixels above background count irrespective of their intensity.
totalCh
colocCh
pixels
pixelsc
,1
,11
totalCh
colocCh
pixels
pixelsc
,2
,22
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
10
Enhanced Colocalization
Data Table
Quantitative Parameters:- Weighted colocalization coefficients
Sum of intensities of colocalizing pixels in channel 1 or 2, respectively, as compared to the overall sum of pixel intensities above threshold and in this channel.
Value range 0 – 1 (0: no colocalization, 1: all pixels colocalize)
Bright pixels contribute more than faint pixels
ii,total
ii,coloc
Ch
ChM
1
1
1
ii,total
ii,coloc
Ch
ChM
2
2
2
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
11
Enhanced Colocalization
Data Table
Quantitative Parameters:- Overlap coefficient, overlap coefficient after Manders (Manders, Verbeek and Aten, J. Microscopy 169:375-382, 1993, PDF on this CD)
Another parameter used to quantify colocalization in image pairs
Insensitive to differences in signal intensities between the two channels, photo-bleaching or amplifier settings
Value range 0 – 1 (0: no colocalization, 1:all pixels colocalize)
i iii
iii
ChCh
ChChr
22 )2(*)1(
2*1
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
12
Enhanced Colocalization
Data Table
Quantitative Parameters:- Correlation coefficient, Pearson´s correlation coefficient
Provides information on the intensity distribution within the colocalizing region
Value range -1 to +1 (-1,+1: all pixels are found on straight line in the scattergram0: pixels in scattergram distribute in a cloud with no preferentialdirection
i iaveriaveri
iaveriaveri
p
ChChChCh
ChChChChR
22 )22(*)11(
)22(*)11(
Zimmermann / Rel 3.2 Colocalization October 2002
AIM Rel 3.2
13
Enhanced Colocalization
Data Table
Quantitative data display for individual scatter regions and image regions
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