GenomeX Data Exchange FHIR IG
0.2.0 - draft

GenomeX Data Exchange FHIR IG, published by MITRE. This guide is not an authorized publication; it is the continuous build for version 0.2.0 built by the FHIR (HL7® FHIR® Standard) CI Build. This version is based on the current content of https://github.com/CodeX-HL7-FHIR-Accelerator/GenomeX-DataExchange/ and changes regularly. See the Directory of published versions

Artifacts Summary

This page provides a list of the FHIR artifacts defined as part of this implementation guide.

Structures: Resource Profiles

These define constraints on FHIR resources for systems conforming to this implementation guide.

GDX Diagnostic Implication

GenomeX subset of genomic diagnostic implication profile.

GDX Lab Organization

Genomic reference lab metadata found in a report.

GDX Patient

The person who is the subject of the genetic/genomic report.

GDX Specimen

GenomeX subset from specimen resource.

GDX Therapeutic Implication

GenomeX subset of genomic therapeutic implication profile.

GDX Variant

GenomeX subset of variant profile.

Genomic Bundle Profile

A FHIR bundle resource containing genomic data exchange-scoped FHIR profiles.

Genomic Report Profile

Genomic analysis summary report. The report may include one or more tests, with two distinct test types. The first type is a targeted mutation test, where a specific mutation on a specific gene is tested for. The result is either positive or negative for that mutation. The second type is a more general test for variants. This type of test returns the identity of variants found in a certain region of the genome.

Genomic Service Request

Test ordering information related to the genomics report.

Example: Example Instances

These are example instances that show what data produced and consumed by systems conforming with this implementation guide might look like.

HereditaryCancerTestingBundleCollectionNegative
HereditaryCancerTestingDiagnosticReportNegative
HereditaryCancerTestingGenRiskAssessNegative
HereditaryCancerTestingGenomicStudy
HereditaryCancerTestingGenomicStudyAnalysis
HereditaryCancerTestingOverInterNegative
HereditaryCancerTestingQuestionnaireResponseNegative
HereditaryCancerTestingRecommendedFollowupNegative
HereditaryCancerTestingServiceRequest
HereditaryCancerTestingVarNegative
Organization
PatientFemale
PatientMale
PractitionerLabDirector
PractitionerOrderingProvider
PractitionerPathologist
PrenatalCollectionBundlePartnered
PrenatalCollectionBundleSingle
PrenatalDiagImpAlpha1ADPatientMale
PrenatalDiagImpAutosomalRecessiveSAoCSPatientMale
PrenatalDiagImpFactorXiDeficiencyPatientFemale
PrenatalDiagImpFactorXiDeficiencyPatientMale
PrenatalDiagImpFamilialHyperinsulinismPatientMale
PrenatalDiagImpFragileXSyndromePatientFemale
PrenatalDiagImpGlycogenStorageDiseasePatientFemale
PrenatalDiagImpGlycogenStorageDiseasePatientMale
PrenatalDiagImpHereditaryHemochromatoPatientFemale
PrenatalDiagImpHereditaryHemochromatoPatientMale
PrenatalDiagImpPrimaryHyperoxaluriaPatientFemale
PrenatalDiagImpPrimaryHyperoxaluriaPatientMale
PrenatalGenomicReportCouple
PrenatalGenomicReportPatientFemale
PrenatalGenomicReportPatientMale
PrenatalGenomicStudyAnalysisAlpha1ADPatientMale
PrenatalGenomicStudyAnalysisAutosomalRecessiveSAoCSPatientMale
PrenatalGenomicStudyAnalysisFactorXiDeficiencyCouple
PrenatalGenomicStudyAnalysisFactorXiDeficiencyPatientFemale
PrenatalGenomicStudyAnalysisFactorXiDeficiencyPatientMale
PrenatalGenomicStudyAnalysisFamilialHyperinsulinismPatientMale
PrenatalGenomicStudyAnalysisFragileXSyndromePatientFemale
PrenatalGenomicStudyAnalysisGlycogenStorageDiseaseCouple
PrenatalGenomicStudyAnalysisGlycogenStorageDiseasePatientFemale
PrenatalGenomicStudyAnalysisGlycogenStorageDiseasePatientMale
PrenatalGenomicStudyAnalysisHereditaryHemochromatoCouple
PrenatalGenomicStudyAnalysisHereditaryHemochromatoPatientFemale
PrenatalGenomicStudyAnalysisHereditaryHemochromatoPatientMale
PrenatalGenomicStudyAnalysisPrimaryHyperoxaluriaCouple
PrenatalGenomicStudyAnalysisPrimaryHyperoxaluriaPatientFemale
PrenatalGenomicStudyAnalysisPrimaryHyperoxaluriaPatientMale
PrenatalGenomicStudyCouple
PrenatalGenomicStudyPatientFemale
PrenatalGenomicStudyPatientMale
PrenatalGroupPatientFemaleandPatientMale
PrenatalNegativeReprRiskCouple
PrenatalNegativeReprRiskPatientMale
PrenatalRecommendedFollowup1PatientFemale

Patients are recommended to discuss reproductive risks with their health care provider or a genetic counselor. Patients may also wish to discuss any positive results with blood relatives, as there is an increased chance that they are also carriers.

PrenatalRecommendedFollowup1PatientMale

Carrier testing should be considered for the diseases specified above for the patient's partner.

PrenatalRecommendedFollowup2PatientMale

Patients are recommended to discuss reproductive risks with their health care provider or a genetic counselor. Patients may also wish to discuss any positive results with blood relatives, as there is an increased chance that they are also carriers.

PrenatalRelatedPersonPatientFemale
PrenatalRelatedPersonPatientMale
PrenatalReprDiagImpAlpha1ADPatientMale
PrenatalReprDiagImpAutosomalRecessiveSAoCSPatientMale
PrenatalReprDiagImpFactorXiDeficiencyCouple
PrenatalReprDiagImpFamilialHyperinsulinismPatientMale
PrenatalReprDiagImpFragileXSyndromeCouple
PrenatalReprDiagImpHereditaryHemochromatoCouple
PrenatalReproductivePostRiskAlpha1ADPatientMale
PrenatalReproductivePostRiskAutosomalRecessiveSAoCSPatientMale
PrenatalReproductivePostRiskFactorXiDeficiencyCouple
PrenatalReproductivePostRiskFamilialHyperinsulinismPatientMale
PrenatalReproductivePreRiskAlpha1ADPatientMale
PrenatalReproductivePreRiskAutosomalRecessiveSAoCSPatientMale
PrenatalReproductivePreRiskFactorXiDeficiencyCouple
PrenatalReproductivePreRiskFamilialHyperinsulinismPatientMale
PrenatalResidualRiskAlpha1ADPatientMale
PrenatalResidualRiskAutosomalRecessiveSAoCSPatientMale
PrenatalResidualRiskFactorXiDeficiencyPatientFemale
PrenatalResidualRiskFactorXiDeficiencyPatientMale
PrenatalResidualRiskFamilialHyperinsulinismPatientMale
PrenatalResidualRiskGlycogenStorageDiseasePatientFemale
PrenatalResidualRiskGlycogenStorageDiseasePatientMale
PrenatalResidualRiskPrimaryHyperoxaluriaPatientFemale
PrenatalResidualRiskPrimaryHyperoxaluriaPatientMale
PrenatalServiceRequestCouple
PrenatalServiceRequestPatientMale
PrenatalSpecimenPatientFemale
PrenatalSpecimenPatientMale
PrenatalVariant1CNVFactorXiDeficiencyPatientMale
PrenatalVariant1FragileXSyndromePatientFemale
PrenatalVariant1SNPAlpha1ADPatientMale
PrenatalVariant1SNPHereditaryHemochromatoPatientFemale
PrenatalVariant1SNPHereditaryHemochromatoPatientMale
PrenatalVariant2FragileXSyndromePatientFemale
PrenatalVariant2SNPHereditaryHemochromatoPatientFemale
PrenatalVariantAutosomalRecessiveSAoCSPatientMale
PrenatalVariantFactorXiDeficiencyPatientFemale
PrenatalVariantFamilialHyperinsulinismPatientMale
PrenatalVariantGlycogenStorageDiseaseTypePatientFemale
PrenatalVariantGlycogenStorageDiseaseTypePatientMale
PrenatalVariantPrimaryHyperoxaluriaPatientFemale
PrenatalVariantPrimaryHyperoxaluriaPatientMale
SpecimenBloodFemale
SpecimenTissueMale
ct-xG-bundle
ct-xT-bundle