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Feature/radiological diagnostic report #49

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merged 14 commits into from
Jul 6, 2023
Merged

Feature/radiological diagnostic report #49

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3160b06
First draft version of a radiological Diagnostic Report
friederike-schneider-mint Mar 16, 2023
900bdb7
Add code to example
friederike-schneider-mint Mar 16, 2023
b22e07d
remove body structure from this branch
friederike-schneider-mint Mar 16, 2023
e5757ed
- update Codes
friederike-schneider-mint Mar 30, 2023
a1330c4
-remove version,status
friederike-schneider-mint Mar 30, 2023
fcfa345
Merge remote-tracking branch 'remotes/origin/main' into feature/radio…
friederike-schneider-mint Mar 30, 2023
310a4e1
Merge remote-tracking branch 'remotes/origin/main' into feature/radio…
friederike-schneider-mint Jul 5, 2023
bdd170b
- image Study relation 0..*
friederike-schneider-mint Jul 5, 2023
38ad00c
clean up:
friederike-schneider-mint Jul 5, 2023
b9ec6dd
Delete radiologicaldiagnosticreport.fsh
friederike-schneider-mint Jul 5, 2023
ac45bae
Update RadiologicalDiagnosticReport.fsh
friederike-schneider-mint Jul 5, 2023
4678123
seperate file for supporting info
friederike-schneider-mint Jul 6, 2023
c64d0d4
refactor
friederike-schneider-mint Jul 6, 2023
afb066a
refactoring
friederike-schneider-mint Jul 6, 2023
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17 changes: 1 addition & 16 deletions input/fsh/Observation_ProcedureCategorisation.fsh
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Expand Up @@ -14,15 +14,6 @@ Description: "Profiles the category of a BodyStructure resource in the context o
* focus 1..1 MS
* focus only Reference(BodyStructure)

// TNM Categories Valueset
ValueSet: VS_TNM_Category_Observation
Id: vs-tnm-category-observation
Title: "Valueset for Categories of a BodyStructure in the context of one TNM procedure"
Description: "This Valueset contains the coded for the different categories for BodyStructures in the context of TNM (Tumor|Node|Metastase)"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs-tnm-category-observation"
* $LNC#21905-5 "Primary tumor.clinical [Class] Cancer"
* $LNC#21906-3 "Regional lymph nodes.clinical [Class] Cancer"
* $LNC#21907-1 "Distant metastases.clinical [Class] Cancer"

//TNM Example
Instance: example-tnm-category-observation
Expand Down Expand Up @@ -54,13 +45,6 @@ Description: "Profiles the category of a BodyStructure resource in the context o
* focus 1..1 MS
* focus only Reference(BodyStructure)

// RECIST Categories Valueset
ValueSet: VS_RECIST_Category_Observation
Id: vs-recsit-category-observation
Title: "Valueset for Categories of a BodyStructure in the context of one RECIST procedure"
Description: "TODO"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs-recsit-category-observation"
* $SCT#103337004 "In partial remission" //TODO

//RECIST Example
Instance: example-recist-category-observation
Expand All @@ -75,3 +59,4 @@ Title: "Example of a RECIST Tumor Category Observation"
* focus = Reference(BodyStructure/exampleBodyStructure)



22 changes: 3 additions & 19 deletions input/fsh/RadiologicalDiagnosticReport.fsh
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@@ -1,7 +1,3 @@
Alias: $LNC = http://loinc.org
Alias: $SCT = http://snomed.info/sct
Alias: $DSS = http://terminology.hl7.org/CodeSystem/v2-0074

//Profile for a Radiological Diagnostic Report
Profile: Radiological_Diagnostic_Report
Parent: DiagnosticReport
Expand All @@ -25,24 +21,12 @@ Description: "Profile for the base definition of all radiological diagnostic rep
* code.coding 1..*
* subject 1..1
* subject only Reference(Patient)
* extension 1..*
* extension 0..*
* extension contains Supporting_Info named supportingInfo 0..* MS
* extension[supportingInfo] ^definition = "Enables to reference a supporting info <Observation or Procedure>. It contains additional information not containt in results and was used/applied during the creation of the report e.g. intermediate Observation results like RECIST target sum or infiltrations used within TNM staging procedures."
* result 0..* MS
* imagingStudy 1..* MS
* imagingStudy 0..* MS
* specimen 0..0


//Supporting Info Extension. HL7 Extension for supporting info not used because of Reference restriction to Observation or Procedure
Extension: Supporting_Info
Id: supporting-info
Title: "Supporting Info"
Description: "Enables to reference a finding <Observation> the diagnostic report refers to"
* ^url = "https://www.vision-zero-oncology.de/fhir/StructureDefinition/supporting-info"
* value[x] 1..1
* value[x] only Reference(Observation or Procedure)


//Example of a Radiological Diagnostic Report
Instance: example-diagnostic-report
InstanceOf: radiological-diagnostic-report
Expand All @@ -57,4 +41,4 @@ Title: "Example Diagnostic Report"
* extension.url = "https://www.vision-zero-oncology.de/fhir/StructureDefinition/supportingInfo"
* extension.valueReference = Reference(Procedure/ExampleProcedure)
* result = Reference (ExampleResultObservation)
* imagingStudy = Reference (ExampleStudy)
* imagingStudy = Reference (ExampleStudy)
14 changes: 0 additions & 14 deletions input/fsh/RadiologicalProcedure.fsh
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Expand Up @@ -25,13 +25,6 @@ Description: "This radiological procedure profile describes the radiological rea
* code 1..1
* code from VS_TNM_Radiological_Read_Procedures (required)

// TNM Procedures Valueset
ValueSet: VS_TNM_Radiological_Read_Procedures
Id: vs-tnm-radiological-read-procedure
Title: "Valueset for TNM Radiological Read Procedures"
Description: "This Valueset contains the snomed codes of the different TNM tumor staging systems"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs-tnm-radiological-read-procedure"
* include codes from system $SCT where concept descendent-of #254293002

//TNM Example
Instance: example-radiological-tnm-read-procedure
Expand All @@ -56,13 +49,6 @@ Description: "This radiological procedure profile describes the radiological rea
* code 1..1
* code from VS_RECIST_Radiological_Read_Procedures (required) //TODO: Fixed Code or Value Set?

// RECIST Procedures Valueset
ValueSet: VS_RECIST_Radiological_Read_Procedures
Id: vs-recist-radiological-read-procedure
Title: "Valueset for RECIST Radiological Read Procedures"
Description: "TODO"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs_recist_radiological_read_procedure"
* $SCT#103337004 "In partial remission" //TODO value set contains differern available RECIST versions (TODO start with current versions?)

//RECIST Example
Instance: example-radiological-recist-read-procedure
Expand Down
8 changes: 8 additions & 0 deletions input/fsh/SupportingInfoExtension.fsh
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@@ -0,0 +1,8 @@
//Supporting Info Extension. HL7 Extension for supporting info not used because of Reference restriction to Observation or Procedure
Extension: Supporting_Info
Id: supportingInfo
Title: "Supporting Info"
Description: "Enables to reference a supporting info <Observation or Procedure>. It contains additional information not containt in results and was used/applied during the creation of the report e.g. intermediate Observation results like RECIST target sum or infiltrations used within TNM staging procedures."
* ^url = "https://www.vision-zero-oncology.de/fhir/StructureDefinition/supportingInfo"
* value[x] 1..1
* value[x] only Reference(Observation or Procedure)
5 changes: 4 additions & 1 deletion input/fsh/aliases.fsh
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Expand Up @@ -28,6 +28,7 @@ Alias: $DSS = http://terminology.hl7.org/CodeSystem/v2-0074
// Core Extensions
// Alias: $WorkFlowEpisodeOfCare = http://hl7.org/fhir/StructureDefinition/workflow-episodeOfCare


//TNM related
Alias: $UICC-TNM = urn:oid:2.16.840.1.113883.15.16

Expand All @@ -40,10 +41,12 @@ Alias: $UICC-TNM = urn:oid:2.16.840.1.113883.15.16
// Alias: $Seitenlokalisation = http://fhir.de/StructureDefinition/seitenlokalisation
// Alias: $UICCCS = http://fhir.de/onkologie/CodeSystem/UICCCS
Alias: $ICD10SeitenlokalisationCS = https://fhir.kbv.de/CodeSystem/KBV_CS_SFHIR_ICD_SEITENLOKALISATION
Alias: $SupportingInfo = http://hl7.org/fhir/StructureDefinition/workflow-supportingInfo

// HL7 DE
Alias: $ICDO3T = http://fhir.de/onkologie/ValueSet/icd-o-3-topologie
Alias: $ICDO3M = http://fhir.de/onkologie/ValueSet/icd-o-3-morphologie
Alias: $DSS = http://terminology.hl7.org/CodeSystem/v2-0074

//ISIK
Alias: $IsikDiagnose = https://gematik.de/fhir/isik/v2/Basismodul/StructureDefinition/ISiKDiagnose
Expand All @@ -57,4 +60,4 @@ Alias: $DiagnosesicherungVS = https://www.vision-zero-oncology.de/fhir/ValueSet/
Alias: $DiagnosesicherungCS = https://www.vision-zero-oncology.de/fhir/CodeSystem/cs-diagnosesicherung-icdo3
Alias: $RadReadProc = https://www.vision-zero-oncology.de/fhir/StructureDefinition/radiological-read-procedure
Alias: $RadTnmReadProc = https://www.vision-zero-oncology.de/fhir/StructureDefinition/radiological-tnm-read-procedure
Alias: $RadRecistReadProc = https://www.vision-zero-oncology.de/fhir/StructureDefinition/radiological-recist-read-procedure
Alias: $RadRecistReadProc = https://www.vision-zero-oncology.de/fhir/StructureDefinition/radiological-recist-read-procedure
37 changes: 37 additions & 0 deletions input/fsh/valueSets.fsh
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Expand Up @@ -434,3 +434,40 @@ Title: "ValueSet Tumor Size Units"
Description: "Acceptable units for measuring tumor size"
* $UCUM#mm "Millimeter"
* $UCUM#cm "Centimeter"


// TNM Procedures Valueset
ValueSet: VS_TNM_Radiological_Read_Procedures
Id: vs-tnm-radiological-read-procedure
Title: "Valueset for TNM Radiological Read Procedures"
Description: "This Valueset contains the snomed codes of the different TNM tumor staging systems"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs-tnm-radiological-read-procedure"
* include codes from system $SCT where concept descendent-of #254293002


// RECIST Procedures Valueset
ValueSet: VS_RECIST_Radiological_Read_Procedures
Id: vs-recist-radiological-read-procedure
Title: "Valueset for RECIST Radiological Read Procedures"
Description: "TODO"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs_recist_radiological_read_procedure"
* $SCT#103337004 "In partial remission" //TODO value set contains differern available RECIST versions (TODO start with current versions?)


// TNM Categories Valueset
ValueSet: VS_TNM_Category_Observation
Id: vs-tnm-category-observation
Title: "Valueset for Categories of a BodyStructure in the context of one TNM procedure"
Description: "This Valueset contains the coded for the different categories for BodyStructures in the context of TNM (Tumor|Node|Metastase)"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs-tnm-category-observation"
* $LNC#21905-5 "Primary tumor.clinical [Class] Cancer"
* $LNC#21906-3 "Regional lymph nodes.clinical [Class] Cancer"
* $LNC#21907-1 "Distant metastases.clinical [Class] Cancer"

// RECIST Categories Valueset
ValueSet: VS_RECIST_Category_Observation
Id: vs-recsit-category-observation
Title: "Valueset for Categories of a BodyStructure in the context of one RECIST procedure"
Description: "TODO"
* ^url = "https://www.vision-zero-oncology.de/fhir/ValueSet/vs-recsit-category-observation"
* $SCT#103337004 "In partial remission" //TODO