ARCHETYPE Radiomics segmentation information entity (openEHR-EHR-CLUSTER.radiomics_segmentation_information_entity.v0)

ARCHETYPE IDopenEHR-EHR-CLUSTER.radiomics_segmentation_information_entity.v0
ConceptRadiomics segmentation information entity
DescriptionRefers to the DICOM Segmentation Object IE.
UseUse to represent a segmentation information entity that is related to a radiomics measurement.
PurposeTo represent a DICOM segmentation information entity.
ReferencesDerived from: <Add reference to original resource here>
NEMA PS3 / ISO 12052, Digital Imaging and Communications in Medicine (DICOM) Standard, National Electrical Manufacturers Association, Rosslyn, VA, USA (available free at http://medical.nema.org/)
Copyright© HiGHmed
AuthorsAuthor name: Christian Haux
Organisation: DKFZ Heidelberg
Email: c.haux@dkfz-heidelberg.de
Date originally authored: 2020-01-22
Other Details LanguageAuthor name: Christian Haux
Organisation: DKFZ Heidelberg
Email: c.haux@dkfz-heidelberg.de
Date originally authored: 2020-01-22
OtherDetails Language Independent{licence=This work is licensed under the Creative Commons Attribution-ShareAlike 4.0 International License. To view a copy of this license, visit http://creativecommons.org/licenses/by-sa/4.0/., custodian_organisation=HiGHmed, references=Derived from: NEMA PS3 / ISO 12052, Digital Imaging and Communications in Medicine (DICOM) Standard, National Electrical Manufacturers Association, Rosslyn, VA, USA (available free at http://medical.nema.org/), original_namespace=org.highmed, original_publisher=HiGHmed, custodian_namespace=org.highmed, MD5-CAM-1.0.1=3736B422FD0C69F96FC01A6B57FA1DDE, build_uid=f7f09c1e-c286-4017-aa1e-f2652e65d5ff, revision=0.0.1-alpha}
KeywordsRadiomics, DICOM
Lifecyclein_development
UID19dea43f-0d8d-41b1-b427-5d499de3d9c4
Language useden
Citeable Identifier1246.145.1279
Revision Number0.0.1-alpha
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Corresponds to the DICOM Content Date (0008,0023) and the DICOM Content Time (0008,0033)., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=Full Date and Time, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0026], code=at0026, itemType=ELEMENT, level=2, text=Image UID, description=UID of the image volume (in DICOM terms the series instance UID) used for the segmentation. If DICOM data is referenced the Series Instance UID will be use (0020,000E)., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0004], code=at0004, itemType=ELEMENT, level=2, text=Image UID scheme designator, description=This optional value can be used to indicate the type of ImageUID. 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These properties can be of several categories e.g. Tissue, Anatomical Structure, Physical object, comment=Important remark: Here our specification differs for the sake of simplicity and flexibility from the DICOM specification. DICOM allows only one segmentation property. If this is not enough DICOM allows to specify as many anatomical (!) property as needed in the AnatomicRegion tags. We allow technically any kind and number of properties. To stay compliant to DICOM only 0 or 1 property of a segmentation may be of a category other then "Anatomical site". To ease the mapping into DICOM, for each column the mapping for AnatomicalSite will also be given. Additional explinations for DICOM AnatomicRegions: AnatomicRegions and its modifier do not always have to be specified. In some situations, information contained in SegmentedPropertyType is sufficient. 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E.g., if one is creating an atlas, where the properties are purely anatomical, and there is no more to say about them than the anatomy, then the anatomy goes in the Segmented Property Type Code Sequence. If one has different types of properties (e.g., necrosis, enhancing rim, gross tumor volume), but one wants to say something about the anatomy (e.g., where the tumor is at), then the property goes in Segmented Property Type Code Sequence and the anatomy goes in Anatomic Region Sequence. When you do want to specify AnatomicRegion, you can consult CID 4 Anatomic Region for the list of codes. Modifier for this code is specified as needed, following the same approach as discussed for SegmentedPropertyTypeModifier of the Segmentation entity., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.radiomics_coding.v0, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0029]/items[at0038], code=at0038, itemType=SLOT, level=2, text=Segmentation property coding type, description=Entity specifies a property of a segmentation to encode semantic characteristics. These properties can be of several categories (e.g. Tissue, Anatomical Structure, Physical object)., comment=Here our specification differs for the sake of simplicity and flexibility from the DICOM specification. DICOM allows only one segmentation property. If this is not enough DICOM allows to specify as many anatomical (!) property as needed in the AnatomicRegion tags. We allow technically any kind and number of properties. To stay compliant to DICOM only 0 or 1 property of a segmentation may be of a category other then "Anatomical site". To ease the mapping into DICOM, for each column the mapping for AnatomicalSite will also be given. Additional explinations for DICOM AnatomicRegions: AnatomicRegions and its modifier do not always have to be specified. In some situations, information contained in SegmentedPropertyType is sufficient. E.g., if one is creating an atlas, where the properties are purely anatomical, and there is no more to say about them than the anatomy, then the anatomy goes in the Segmented Property Type Code Sequence. If one has different types of properties (e.g., necrosis, enhancing rim, gross tumor volume), but one wants to say something about the anatomy (e.g., where the tumor is at), then the property goes in Segmented Property Type Code Sequence and the anatomy goes in Anatomic Region Sequence. When you do want to specify AnatomicRegion, you can consult CID 4 Anatomic Region for the list of codes. Modifier for this code is specified as needed, following the same approach as discussed for SegmentedPropertyTypeModifier of the Segmentation entity., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
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By default we use DICOM segmentation objects but we support other masks as well. Other types of segmentations (e.g. a RTStructureSet) must be voxelized first and converted into mask(s) (preferably as DICOM Segmentation Object)., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=1..*, cardinalityText=, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0021], code=at0021, itemType=ELEMENT, level=2, text=Segmentation UID, description=Unique identifier of the location/segmentation done of an object., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0002], code=at0002, itemType=ELEMENT, level=2, text=Name, description=User-defined label identifying this segmentation. 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Corresponds to the DICOM Content Date (0008,0023) and the DICOM Content Time (0008,0033)., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_DATE_TIME, bindings=null, values=Full Date and Time, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0026], code=at0026, itemType=ELEMENT, level=2, text=Image UID, description=UID of the image volume (in DICOM terms the series instance UID) used for the segmentation. If DICOM data is referenced the Series Instance UID will be use (0020,000E)., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0004], code=at0004, itemType=ELEMENT, level=2, text=Image UID scheme designator, description=This optional value can be used to indicate the type of ImageUID. Default value is 'DCM' indicating that ImageUID referring to the SeriesInstanceUID of the image series/volume used to generate the segmentation., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_TEXT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0005], code=at0005, itemType=ELEMENT, level=2, text=DCM segmentation UID, description=If the Location is defined by a DCM segmentation object, this property is set and contains the SOP Instance UID of the segmentation (0008,0018)., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0001]/items[at0037], code=at0037, itemType=ELEMENT, level=2, text=DCM segment number, description=If the Location is defined by a DCM segmentation object, this property is set and contains the Segment Number (0062,0004) that indentifies the label within the segmentation object., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_COUNT, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0040], code=at0040, itemType=CLUSTER, level=1, text=Object, description=Definition of a specific object for which features should be extracted. 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These properties can be of several categories e.g. Tissue, Anatomical Structure, Physical object, comment=Important remark: Here our specification differs for the sake of simplicity and flexibility from the DICOM specification. DICOM allows only one segmentation property. If this is not enough DICOM allows to specify as many anatomical (!) property as needed in the AnatomicRegion tags. We allow technically any kind and number of properties. To stay compliant to DICOM only 0 or 1 property of a segmentation may be of a category other then "Anatomical site". To ease the mapping into DICOM, for each column the mapping for AnatomicalSite will also be given. Additional explinations for DICOM AnatomicRegions: AnatomicRegions and its modifier do not always have to be specified. In some situations, information contained in SegmentedPropertyType is sufficient. E.g., if one is creating an atlas, where the properties are purely anatomical, and there is no more to say about them than the anatomy, then the anatomy goes in the Segmented Property Type Code Sequence. If one has different types of properties (e.g., necrosis, enhancing rim, gross tumor volume), but one wants to say something about the anatomy (e.g., where the tumor is at), then the property goes in Segmented Property Type Code Sequence and the anatomy goes in Anatomic Region Sequence. When you do want to specify AnatomicRegion, you can consult CID 4 Anatomic Region for the list of codes. 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These properties can be of several categories (e.g. Tissue, Anatomical Structure, Physical object)., comment=Here our specification differs for the sake of simplicity and flexibility from the DICOM specification. DICOM allows only one segmentation property. If this is not enough DICOM allows to specify as many anatomical (!) property as needed in the AnatomicRegion tags. We allow technically any kind and number of properties. To stay compliant to DICOM only 0 or 1 property of a segmentation may be of a category other then "Anatomical site". To ease the mapping into DICOM, for each column the mapping for AnatomicalSite will also be given. Additional explinations for DICOM AnatomicRegions: AnatomicRegions and its modifier do not always have to be specified. In some situations, information contained in SegmentedPropertyType is sufficient. E.g., if one is creating an atlas, where the properties are purely anatomical, and there is no more to say about them than the anatomy, then the anatomy goes in the Segmented Property Type Code Sequence. If one has different types of properties (e.g., necrosis, enhancing rim, gross tumor volume), but one wants to say something about the anatomy (e.g., where the tumor is at), then the property goes in Segmented Property Type Code Sequence and the anatomy goes in Anatomic Region Sequence. When you do want to specify AnatomicRegion, you can consult CID 4 Anatomic Region for the list of codes. Modifier for this code is specified as needed, following the same approach as discussed for SegmentedPropertyTypeModifier of the Segmentation entity., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.radiomics_coding.v0, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0029]/items[at0038], code=at0038, itemType=SLOT, level=2, text=Segmentation property coding type, description=Entity specifies a property of a segmentation to encode semantic characteristics. These properties can be of several categories (e.g. Tissue, Anatomical Structure, Physical object)., comment=Here our specification differs for the sake of simplicity and flexibility from the DICOM specification. DICOM allows only one segmentation property. If this is not enough DICOM allows to specify as many anatomical (!) property as needed in the AnatomicRegion tags. We allow technically any kind and number of properties. To stay compliant to DICOM only 0 or 1 property of a segmentation may be of a category other then "Anatomical site". To ease the mapping into DICOM, for each column the mapping for AnatomicalSite will also be given. Additional explinations for DICOM AnatomicRegions: AnatomicRegions and its modifier do not always have to be specified. In some situations, information contained in SegmentedPropertyType is sufficient. E.g., if one is creating an atlas, where the properties are purely anatomical, and there is no more to say about them than the anatomy, then the anatomy goes in the Segmented Property Type Code Sequence. If one has different types of properties (e.g., necrosis, enhancing rim, gross tumor volume), but one wants to say something about the anatomy (e.g., where the tumor is at), then the property goes in Segmented Property Type Code Sequence and the anatomy goes in Anatomic Region Sequence. When you do want to specify AnatomicRegion, you can consult CID 4 Anatomic Region for the list of codes. Modifier for this code is specified as needed, following the same approach as discussed for SegmentedPropertyTypeModifier of the Segmentation entity., uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.radiomics_coding.v0, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0029]/items[at0032], code=at0032, itemType=CLUSTER, level=2, text=Segmentation property type modifier, description=Optional values that can be used to modify the SegmentedPropertyType given for the referenced segmentation., comment=Example: SegmentedPropertyTypeModifierCodeSequence is an optional attribute that augments segmented property type code. As an example, if SegmentedPropertyTypeModifier is "Kidney", SegmentedPropertyTypeModifier can be "Left" to specify laterality. More modifier codes are available in part 16 of the standard, as an example see CID 2 Anatomic Modifier. Additional explinations for DICOM AnatomicRegions: If a segmentation Property is/has to be encodid as a AnatomicRegion in the DICOM IOD the modifier values have to be encoded differently. The specific information can be found in each column description. For more information regarding SegmentationProperty and AnatomicRegion see the description of the SegmentationProperty entity., uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=1..*, cardinalityText=, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0029]/items[at0032]/items[at0033], code=at0033, itemType=ELEMENT, level=3, text=Segmentation property type modifier UID, description=Identifier for the segmentation property type modifier., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0029]/items[at0031], code=at0031, itemType=ELEMENT, level=3, text=Segmentation property UID, description=Identifier of the segmentation property., comment=null, uncommonOntologyItems=null, occurencesFormal=0..1, occurencesText=Optional, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=DV_IDENTIFIER, bindings=null, values=, extendedValues=null], ResourceSimplifiedHierarchyItem [path=/items[at0029]/items[at0032]/items[at0035], code=at0035, itemType=SLOT, level=3, text=Segmentation property type modifier coding, description=Optional value defining the modifier of the SegmentedPropertyType., comment=null, uncommonOntologyItems=null, occurencesFormal=0..*, occurencesText=Optional, repeating, cardinalityFormal=null, cardinalityText=null, subCardinalityFormal=null, subCardinalityText=null, dataType=CLUSTER, bindings=null, values=Include:
openEHR-EHR-CLUSTER.radiomics_coding.v0, extendedValues=null]], minIndents={}, termBindingRetrievalErrorMessage=null]