High content analysis tools

 

Influenza method paper supplementary

Uncoating and nuclear import screen features

Features were extracted using CellProfiler. For detailed explanation see [1] and [2].

Intensity features

Feature name

Object type

Spectral channel

Integrated intensity

Cell

AF488

Mean intensity

Nucleus, Cell

AF488, Hoechst 33258

Std intensity

Nucleus, Cell

AF488, Hoechst 33258

Min intensity

Cell

AF488

Max intensity

Cell

AF488

Integrated intensity edge

Cell

AF488

Mean intensity edge

Cell

AF488

Std intensity edge

Cell

AF488

Min intensity edge

Cell

AF488

Max intensity edge

Cell

AF488

Mass displacement

Cell

AF488

Median intensity

Cell

AF488

 

Shape features from the nucleus

          Area

          Eccentricity

          Solidity

          Extent

          Euler number

          Perimeter

          Form factor

          Major & minor axis length

          Orientation

Texture (Haralick) features on AF488

Angular second moment, Contrast, Correlation, Variance, Inverse difference moment, Sum average, Sum variance, Sum entropy, Entropy, Difference variance, Difference entropy, Info meas 1-2, Gabor X&Y 

References

[1] Carpenter, A. E.; Jones, T. R.; Lamprecht, M. R.; Clarke, C.; Kang, I. H.; Friman, O.; Guertin, D. A.; Chang, J. H.; Lindquist, R. A.; Moffat, J.; et al. CellProfiler: Image Analysis Software for Identifying and Quantifying Cell Phenotypes. Genome Biol. 2006, 7(10), R100.

[2] Haralick. Textural Features for Image Classification. IEEE Transaction on Systems Man, Cybernetics, 1973

 

 

 

 

 

 

 

 

 

 

 

 

 

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