chromatin distribution in TEM

[Glen MacDonald-3]

HI,
I’m attempting to quantify differences in distribution of chromatin in TEM images of nuclei.  the nuclei are round or slightly oval.     Depending on treatment, chromatin distribution varies from many darkly labeled small clumps or a few dark large bodies adjacent to the nuclear membrane, or chromatin bodies spread throughout the nucleoplasm.  A size distribution is easy to obtain.  are there suggestions for how to describe locations?  Perhaps distance from nucleus centroid to chromatin body centroid, or distance from chromatin centroid to nuclear membrane?

Thanks,
Glen
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[Bill Christens-Barry-2]

Hi, Glen.

There is lots of literature describing the use of Markov texture features to describe chromatin structure in cell nuclei. Many such texture features are defined (cf papers by Robert Haralick and also papers by Norman J. Pressman), based on gray scale co-occurence matrices that characterize the second order statistics of chromatin distribution. An ImageJ plugin created by Julio Cabrera is described at:

    https://imagej.nih.gov/ij/plugins/download/GLCM_Texture.java

hth,

Bill Christens-Barry

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[Glen MacDonald-3]

Thanks Bill,
I will give it a try.  compiled in ImageJ1, next will read the papers,  and try to get it into Fiji.

Glen

> On Apr 3, 2019, at 2:26 PM, Bill Christens-Barry <[hidden email]> wrote:
>
> Hi, Glen.
>
> There is lots of literature describing the use of Markov texture features to describe chromatin structure in cell nuclei. Many such texture features are defined (cf papers by Robert Haralick and also papers by Norman J. Pressman), based on gray scale co-occurence matrices that characterize the second order statistics of chromatin distribution. An ImageJ plugin created by Julio Cabrera is described at:
>
>    https://imagej.nih.gov/ij/plugins/download/GLCM_Texture.java
>
> hth,
>
> Bill Christens-Barry
>
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> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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