New instances "maps"

[spieschnik]

How should the following BIDS suffixes be mapped in openMINDS?

Macromolecular tissue volume (MTV) image
MTV maps are the output file after performing an MRI and a macromolecular tissue volume analysis (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3855886/).

Mapping suggestion:
New analysis Technique "macromolecular tissue volume analysis" OR "macromolecular tissue volume estimation" + technique https://openminds.ebrains.eu/instances/technique/quantitativeMagneticResonanceImaging
"MTV map" (new, openMINDS schema to be discussed)

Magnetization transfer ratio image
MTR maps are the output file after performing the techniques
https://radiopaedia.org/articles/magnetisation-transfer-1
https://www.sciencedirect.com/topics/medicine-and-dentistry/magnetization-transfer

Mapping suggestion:
New MRI Pulse Sequence "magnetization transfer pulse sequence" + technique https://openminds.ebrains.eu/instances/technique/magneticResonanceImaging +new analysis technique "magnetization transfer ratio analysis" + new technique "magnetization transfer ratio analysis" + new technique "describing the matching of images produced with and without MT pulse sequence which produces the MTR maps (name to be discussed)"
"MTR map" (new, openMINDS schema to be discussed)

Magnetization transfer saturation image
MTsat maps are the output file after performing the techniques
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9925884/

Mapping suggestion:
New MRI Pulse Sequence "magnetization transfer pulse sequence" + technique https://openminds.ebrains.eu/instances/technique/magneticResonanceImaging + new analysis technique "magnetization transfer saturation analysis" + new technique "magnetization transfer saturation quantification" + new technique "sequence of MRI pulse sequences to produce the necessary data"
"MTsat map" (new, openMINDS schema to be discussed)

Myelin water fraction image
MWF maps are the output file after performing the techniques
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5928546/

Mapping suggestion:
New analysis technique "myelin water fraction ratio analysis" + MRI pulse sequence https://openminds.ebrains.eu/instances/MRIPulseSequence/T2PulseSequence + technique https://openminds.ebrains.eu/instances/technique/magneticResonanceImaging + technique (if more are needed to describe how the maps were created?)
"MWF map" (new, openMINDS schema to be discussed)

[UlrikeS91]

Suggestion from offline meeting with @spieschnik, @lzehl, @Peyman-N and @tgbugs

MTV:

• create new analysis technique: "macromolecular tissue volume estimation"
• https://openminds.ebrains.eu/instances/technique/quantitativeMagneticResonanceImaging is correct as technique
• image doesn't concern us for the mapping, but good for @Peyman-N to check if the new image schemas for the neuroimaging extension are good

MTR:

• create new MRI Pulse Sequence "magnetization transfer pulse sequence"
• https://openminds.ebrains.eu/instances/technique/magneticResonanceImaging is correct as technique
• create new analysis technique "magnetization transfer ratio analysis"
• image doesn't concern us for the mapping, but good for @Peyman-N to check if the new image schemas for the neuroimaging extension are good

MTsat:

• create new MRI Pulse Sequence "magnetization transfer fast low angle shot pulse sequence" (MT FLASH)
• create new MRI Pulse Sequence "magnetization transfer saturation pulse sequence"
• https://openminds.ebrains.eu/instances/technique/magneticResonanceImaging is correct as technique
• new analysis technique "magnetization transfer saturation analysis"
• image doesn't concern us for the mapping, but good for @Peyman-N to check if the new image schemas for the neuroimaging extension are good

(we didn't get through MWF, but it would probably be solved similarly)

We are not really sure if this is correct for all cases and if it might be better to just create one new technique per "map" to reflect this uncertainty. Do we know anybody that could help with this? @yarikoptic maybe?

[UlrikeS91]

(from list from issue #57)

[lzehl]

NOTE: issue was revised (TODOs are in bold)

MTV:

• macromolecular tissue volume image processing (AnalysisTechnique)
• quantitative magnetic resonance imaging (Technique; exists already)

MTR:

• magnetization transfer pulse sequence (MRIPulseSequence)
• magnetic transfer imaging (Technique)
• magnetization transfer ratio image processing (AnalysisTechnique)

MTsat:

• magnetization transfer pulse sequence (MRIPulseSequence)
• magnetic transfer imaging (Technique)
• magnetization transfer saturation image processing (AnalysisTechnique)

[lzehl]

@spieschnik could you take this one over?

[spieschnik]

Will work on this when I find the time - getting started with MTV now

[spieschnik]

@lzehl all TODOS are either already existing or open PR's