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Best practice to implement SNOMED CT in DICOM Structured Reports

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Subject: Best practice to implement SNOMED CT in DICOM Structured Reports
From: johannes.bretscher@airamed.de (Johannes Bretscher)
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by: Johannes Bretscher - Fri, 9 Sep 2022 08:55 UTC

I have an application that uses DICOM as communication interface. To report results of calculated measurements I need to use an internationally accepted standard and decided on SNOMED CT. Now, are there some best practices to implement SNOMED CT in a DICOM Structured Report? For example, I have the volume of a brain region which might be

439749006 |Volume of structure by imaging measurement|:
363698007|finding site|=4958002 |Amygdaloid structure|,
767525000 |Unit|=258773002 |Milliliter|

And then somehow the actual measurement added. Are there experiences, best practices or similar to organise a series of measurements like that and other measurements I make, like lesion counts, in a DICOM Structured Report?

Re: Best practice to implement SNOMED CT in DICOM Structured Reports

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Subject: Re: Best practice to implement SNOMED CT in DICOM Structured Reports
From: andrey.fedorov@gmail.com (Andrey Fedorov)
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by: Andrey Fedorov - Sat, 10 Sep 2022 03:29 UTC

We presented some initial work in this direction in this manuscript: https://peerj.com/articles/2057/, which followed by this library that can be helpful in creating such SRs: https://github.com/QIICR/dcmqi.

dcmqi works for saving volumetric measurements defined over segmentations. highdicom is a python library that is more flexible in that regard supporting a broad range of measurements over planar annotations: https://github.com/herrmannlab/highdicom.

NCI Imaging Data Commons contains collections that are accompanied by measurement saved as SRs (although I believe all of those are for regions defined by segmentations): https://imaging.datacommons.cancer.gov/explore/, including the collections described here: https://aapm.onlinelibrary.wiley.com/doi/full/10.1002/mp.14445 and here: https://www.nature.com/articles/s41598-019-45766-z.

Those publications, examples and tools should be helpful, but if you have more specific questions, please let us know!

Andrey

On Friday, September 9, 2022 at 4:55:34 AM UTC-4, johannes....@airamed.de wrote:
> I have an application that uses DICOM as communication interface. To report results of calculated measurements I need to use an internationally accepted standard and decided on SNOMED CT. Now, are there some best practices to implement SNOMED CT in a DICOM Structured Report? For example, I have the volume of a brain region which might be
>
> 439749006 |Volume of structure by imaging measurement|:
> 363698007|finding site|=4958002 |Amygdaloid structure|,
> 767525000 |Unit|=258773002 |Milliliter|
>
> And then somehow the actual measurement added. Are there experiences, best practices or similar to organise a series of measurements like that and other measurements I make, like lesion counts, in a DICOM Structured Report?

If you can't understand it, it is intuitively obvious.

devel / comp.protocols.dicom / Re: Best practice to implement SNOMED CT in DICOM Structured Reports

Subject	Author
Best practice to implement SNOMED CT in DICOM Structured Reports	Johannes Bretscher
Re: Best practice to implement SNOMED CT in DICOM Structured Reports	Andrey Fedorov