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Topic Title: Colocalization?
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Created On: 2/1/2017 10:57 AM
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 2/1/2017 10:57 AM
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DLogan

Posts: 10
Joined: 11/7/2016

Hi,

Is there an example of colocalization analysis using Columbus? i.e. If someone has two sets of independently identified objects, how can we measure overlap?

Thanks!

 2/1/2017 2:07 PM
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NW

Posts: 44
Joined: 5/13/2014

Hi,

What values were you hoping to extract? Are you looking for volumetric/intensity measurements, e.g. % overlap, or the intensity of one channel within the bounds of another; or statistical outputs such as Pearsons correlation, etc.?

Thanks,

Nick

 2/3/2017 3:58 PM
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DLogan

Posts: 10
Joined: 11/7/2016

All good questions as indeed there are many ways to quantify colocalization. This is partially theoretical since a colleague just asked me how to do this and I couldn't recall ever seeing this in Columbus.

Well, I am currently doing "intensity of one channel within the bounds of another". But I was specifically thinking of % overlap of populations (per-object),as well as "statistical outputs such as Pearsons correlation" (per image).

Thanks,
David

 2/8/2017 10:20 AM
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NW

Posts: 44
Joined: 5/13/2014

Hi David,

Thanks for the feedback.

As part of Columbus 2.7 we introduced the Assay Specific Building block functionality, which allows uses to integrate a custom building block into their image analysis routines. One of our application experts has written a building block specifically designed to calculate the Pearsons correlations values for any two channels within your data set, on a per object or per image basis.

In order to unlock the Assay specific building functionality in Columbus 2.7 we would need to introduce a dedicated license file to your server. As of Columbus 2.8, the default license file that is packaged with Columbus will be sufficient to unlock the functionality.

I can help you configure the server and provide the custom building block, if your colleague would like to evaluate it?

Thanks,

Nick

 2/13/2017 12:54 PM
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DLogan

Posts: 10
Joined: 11/7/2016

Thanks Nick, that sounds great. I'll follow up with you via email.

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