FHIR IG analytics| Package | hl7.fhir.uv.xver-r3.r5 |
| Resource Type | ConceptMap |
| Id | ConceptMap-R3-Sequence-element-map-to-R5.json |
| FHIR Version | R5 |
| Source | http://hl7.org/fhir/uv/xver-r3.r5/0.1.0/ConceptMap-R3-Sequence-element-map-to-R5.html |
| URL | http://hl7.org/fhir/uv/xver/ConceptMap/R3-Sequence-element-map-to-R5 |
| Version | 0.1.0 |
| Status | active |
| Date | 2026-03-17T16:05:00.458892-05:00 |
| Name | R3SequenceElementMapToR5 |
| Title | Cross-version mapping for FHIR STU3 Sequence to FHIR R5 MolecularSequence |
| Realm | uv |
| Authority | hl7 |
| Description | This ConceptMap represents cross-version mappings for elements from a FHIR STU3 Sequence to FHIR R5. |
No resources found
| StructureDefinition | ||
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.coordinateSystem | STU3: Base number of coordinate system (0 for 0-based numbering or coordinates, inclusive start, exclusive end, 1 for 1-based numbering, inclusive start, inclusive end) (new) |
| hl7.fhir.uv.xver-r3.r4b#0.1.0 | extension-Sequence.identifier | STU3: identifier additional types |
| hl7.fhir.uv.xver-r3.r4b#0.1.0 | extension-Sequence.meta | STU3: meta additional types |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.observedSeq | STU3: Sequence that was observed (new) |
| hl7.fhir.uv.xver-r3.r4b.r4#0.0.1-snapshot-2 | extension-Sequence.pointer | Cross-version Extension for R3.Sequence.pointer for use in FHIR R4B |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.quality | STU3: An set of value as quality of sequence (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.quantity | STU3: The number of copies of the seqeunce of interest. (RNASeq) (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.readCoverage | STU3: Average number of reads representing a given nucleotide in the reconstructed sequence (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.referenceSeq.genomeBuild | STU3: The Genome Build used for reference, following GRCh build versions e.g. 'GRCh 37' (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.referenceSeq.referenceSeqId | STU3: Reference identifier (new) |
| hl7.fhir.uv.xver-r3.r4b.r4#0.0.1-snapshot-2 | extension-Sequence.referenceSeq.referenceSeqPointer | Cross-version Extension for R3.Sequence.referenceSeq.referenceSeqPointer for use in FHIR R4B |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.referenceSeq.referenceSeqString | STU3: A string to represent reference sequence (new) |
| hl7.fhir.uv.xver-r3.r4b#0.1.0 | extension-Sequence.referenceSeq.strand | STU3: Directionality of DNA ( +1/-1) additional types |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.referenceSeq.windowEnd | STU3: End position of the window on the reference sequence (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.referenceSeq.windowStart | STU3: Start position of the window on the reference sequence (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.repository | STU3: External repository which contains detailed report related with observedSeq in this resource (new) |
| hl7.fhir.uv.xver-r3.r4b#0.1.0 | extension-Sequence.text | STU3: text additional types |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.variant.cigar | STU3: Extended CIGAR string for aligning the sequence with reference bases (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.variant.end | STU3: End position of the variant on the reference sequence (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.variant.start | STU3: Start position of the variant on the reference sequence (new) |
| hl7.fhir.uv.xver-r3.r5#0.1.0 | extension-Sequence.variant.variantPointer | STU3: Pointer to observed variant information (new) |
Note: links and images are rebased to the (stated) source
Generated Narrative: ConceptMap R3-Sequence-element-map-to-R5
Mapping from http://hl7.org/fhir/3.0 to http://hl7.org/fhir/5.0
Group 1 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to MolecularSequenceversion: 5.0.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.meta (meta) | is broader than | MolecularSequence.meta | Element `Sequence.meta` is mapped to FHIR R5 element `MolecularSequence.meta` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.meta` do not cover the following types: Meta. The mappings for `Sequence.meta` do not cover the following types based on type expansion: lastUpdated, profile, security, tag, versionId. |
| Sequence.implicitRules (implicitRules) | is equivalent to | MolecularSequence.implicitRules | Element `Sequence.implicitRules` is mapped to FHIR R5 element `MolecularSequence.implicitRules` as `Equivalent`. Asserting this rule set restricts the content to be only understood by a limited set of trading partners. This inherently limits the usefulness of the data in the long term. However, the existing health eco-system is highly fractured, and not yet ready to define, collect, and exchange data in a generally computable sense. Wherever possible, implementers and/or specification writers should avoid using this element. This element is labelled as a modifier because the implicit rules may provide additional knowledge about the resource that modifies it's meaning or interpretation. |
| Sequence.language (language) | is equivalent to | MolecularSequence.language | Element `Sequence.language` is mapped to FHIR R5 element `MolecularSequence.language` as `Equivalent`. Language is provided to support indexing and accessibility (typically, services such as text to speech use the language tag). The html language tag in the narrative applies to the narrative. The language tag on the resource may be used to specify the language of other presentations generated from the data in the resource Not all the content has to be in the base language. The Resource.language should not be assumed to apply to the narrative automatically. If a language is specified, it should it also be specified on the div element in the html (see rules in HTML5 for information about the relationship between xml:lang and the html lang attribute). |
| Sequence.text (text) | is broader than | MolecularSequence.text | Element `Sequence.text` is mapped to FHIR R5 element `MolecularSequence.text` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.text` do not cover the following types: Narrative. The mappings for `Sequence.text` do not cover the following types based on type expansion: div, status. Contained resources do not have narrative. Resources that are not contained SHOULD have a narrative. In some cases, a resource may only have text with little or no additional discrete data (as long as all minOccurs=1 elements are satisfied). This may be necessary for data from legacy systems where information is captured as a "text blob" or where text is additionally entered raw or narrated and encoded in formation is added later. |
| Sequence.contained (contained) | is equivalent to | MolecularSequence.contained | Element `Sequence.contained` is mapped to FHIR R5 element `MolecularSequence.contained` as `SourceIsBroaderThanTarget`. This should never be done when the content can be identified properly, as once identification is lost, it is extremely difficult (and context dependent) to restore it again. |
| Sequence.identifier (identifier) | is broader than | MolecularSequence.identifier | Element `Sequence.identifier` is mapped to FHIR R5 element `MolecularSequence.identifier` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.identifier` do not cover the following types: Identifier. The mappings for `Sequence.identifier` do not cover the following types based on type expansion: assigner, period, system, type, use, value. |
| Sequence.type (type) | is equivalent to | MolecularSequence.type | Element `Sequence.type` is mapped to FHIR R5 element `MolecularSequence.type` as `Equivalent`. |
| Sequence.patient (patient) | is broader than | MolecularSequence.subject | Element `Sequence.patient` is mapped to FHIR R5 element `MolecularSequence.subject` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.patient` do not cover the following types based on type expansion: display, identifier, reference. The standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.patient` with unmapped reference targets: Patient. |
| Sequence.specimen (specimen) | is broader than | MolecularSequence.specimen | Element `Sequence.specimen` is mapped to FHIR R5 element `MolecularSequence.specimen` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.specimen` do not cover the following types based on type expansion: display, identifier, reference. The standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.specimen` with unmapped reference targets: Specimen. |
| Sequence.device (device) | is broader than | MolecularSequence.device | Element `Sequence.device` is mapped to FHIR R5 element `MolecularSequence.device` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.device` do not cover the following types based on type expansion: display, identifier, reference. The standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.device` with unmapped reference targets: Device. |
| Sequence.performer (performer) | is broader than | MolecularSequence.performer | Element `Sequence.performer` is mapped to FHIR R5 element `MolecularSequence.performer` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.performer` do not cover the following types based on type expansion: display, identifier, reference. The standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.performer` with unmapped reference targets: Organization. |
| Sequence.referenceSeq (referenceSeq) | is related to | MolecularSequence.relative | Element `Sequence.referenceSeq` is mapped to FHIR R5 element `MolecularSequence.relative` as `SourceIsNarrowerThanTarget`. |
| Sequence.referenceSeq.chromosome (chromosome) | is equivalent to | MolecularSequence.relative.startingSequence.chromosome | Element `Sequence.referenceSeq.chromosome` is mapped to FHIR R5 element `MolecularSequence.relative.startingSequence.chromosome` as `Equivalent`. |
| Sequence.referenceSeq.strand (strand) | is broader than | MolecularSequence.relative.startingSequence.strand | Element `Sequence.referenceSeq.strand` is mapped to FHIR R5 element `MolecularSequence.relative.startingSequence.strand` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.referenceSeq.strand` do not cover the following types: integer. The mappings for `Sequence.referenceSeq.strand` do not cover the following types based on type expansion: value. |
| Sequence.variant (variant) | is broader than | MolecularSequence.relative | Element `Sequence.variant` is mapped to FHIR R5 element `MolecularSequence.relative` as `Equivalent`. |
| Sequence.variant.observedAllele (observedAllele) | is equivalent to | MolecularSequence.relative.edit.replacementSequence | Element `Sequence.variant.observedAllele` is mapped to FHIR R5 element `MolecularSequence.relative.edit.replacementSequence` as `Equivalent`. |
| Sequence.variant.referenceAllele (referenceAllele) | is equivalent to | MolecularSequence.relative.edit.replacedSequence | Element `Sequence.variant.referenceAllele` is mapped to FHIR R5 element `MolecularSequence.relative.edit.replacedSequence` as `Equivalent`. |
Group 2 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: meta additional typesversion: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.meta (meta) | is broader than | Extension (STU3: meta additional types) | Element `Sequence.meta` is mapped to FHIR R5 element `MolecularSequence.meta` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.meta` do not cover the following types: Meta. The mappings for `Sequence.meta` do not cover the following types based on type expansion: lastUpdated, profile, security, tag, versionId. |
Group 3 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: text additional typesversion: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.text (text) | is broader than | Extension (STU3: text additional types) | Element `Sequence.text` is mapped to FHIR R5 element `MolecularSequence.text` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.text` do not cover the following types: Narrative. The mappings for `Sequence.text` do not cover the following types based on type expansion: div, status. Contained resources do not have narrative. Resources that are not contained SHOULD have a narrative. In some cases, a resource may only have text with little or no additional discrete data (as long as all minOccurs=1 elements are satisfied). This may be necessary for data from legacy systems where information is captured as a "text blob" or where text is additionally entered raw or narrated and encoded in formation is added later. |
Group 4 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Unique ID for this particular sequence. This is a FHIR-defined id additional typesversion: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.identifier (identifier) | is broader than | Extension (STU3: Unique ID for this particular sequence. This is a FHIR-defined id additional types) | Element `Sequence.identifier` is mapped to FHIR R5 element `MolecularSequence.identifier` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.identifier` do not cover the following types: Identifier. The mappings for `Sequence.identifier` do not cover the following types based on type expansion: assigner, period, system, type, use, value. |
Group 5 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Base number of coordinate system (0 for 0-based numbering or coordinates, inclusive start, exclusive end, 1 for 1-based numbering, inclusive start, inclusive end) (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.coordinateSystem (coordinateSystem) | is equivalent to | Extension (STU3: Base number of coordinate system (0 for 0-based numbering or coordinates, inclusive start, exclusive end, 1 for 1-based numbering, inclusive start, inclusive end) (new)) | Element `Sequence.coordinateSystem` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.coordinateSystem` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 6 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: The number of copies of the seqeunce of interest. (RNASeq) (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.quantity (quantity) | is equivalent to | Extension (STU3: The number of copies of the seqeunce of interest. (RNASeq) (new)) | Element `Sequence.quantity` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quantity` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 7 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: The Genome Build used for reference, following GRCh build versions e.g. 'GRCh 37' (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.genomeBuild (genomeBuild) | is equivalent to | Extension (STU3: The Genome Build used for reference, following GRCh build versions e.g. 'GRCh 37' (new)) | Element `Sequence.referenceSeq.genomeBuild` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.referenceSeq.genomeBuild` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 8 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Reference identifier (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.referenceSeqId (referenceSeqId) | is equivalent to | Extension (STU3: Reference identifier (new)) | Element `Sequence.referenceSeq.referenceSeqId` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.referenceSeq.referenceSeqId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 9 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: A Pointer to another Sequence entity as reference sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.referenceSeqPointer (referenceSeqPointer) | is equivalent to | Extension (STU3: A Pointer to another Sequence entity as reference sequence (new)) | Element `Sequence.referenceSeq.referenceSeqPointer` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.referenceSeq.referenceSeqPointer` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 10 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: A string to represent reference sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.referenceSeqString (referenceSeqString) | is equivalent to | Extension (STU3: A string to represent reference sequence (new)) | Element `Sequence.referenceSeq.referenceSeqString` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.referenceSeq.referenceSeqString` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 11 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Directionality of DNA ( +1/-1) additional typesversion: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.strand (strand) | is broader than | Extension (STU3: Directionality of DNA ( +1/-1) additional types) | Element `Sequence.referenceSeq.strand` is mapped to FHIR R5 element `MolecularSequence.relative.startingSequence.strand` as `SourceIsBroaderThanTarget`. The mappings for `Sequence.referenceSeq.strand` do not cover the following types: integer. The mappings for `Sequence.referenceSeq.strand` do not cover the following types based on type expansion: value. |
Group 12 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Start position of the window on the reference sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.windowStart (windowStart) | is equivalent to | Extension (STU3: Start position of the window on the reference sequence (new)) | Element `Sequence.referenceSeq.windowStart` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.referenceSeq.windowStart` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 13 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: End position of the window on the reference sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.referenceSeq.windowEnd (windowEnd) | is equivalent to | Extension (STU3: End position of the window on the reference sequence (new)) | Element `Sequence.referenceSeq.windowEnd` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.referenceSeq.windowEnd` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 14 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Start position of the variant on the reference sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.variant.start (start) | is equivalent to | Extension (STU3: Start position of the variant on the reference sequence (new)) | Element `Sequence.variant.start` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.variant.start` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 15 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: End position of the variant on the reference sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.variant.end (end) | is equivalent to | Extension (STU3: End position of the variant on the reference sequence (new)) | Element `Sequence.variant.end` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.variant.end` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 16 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Extended CIGAR string for aligning the sequence with reference bases (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.variant.cigar (cigar) | is equivalent to | Extension (STU3: Extended CIGAR string for aligning the sequence with reference bases (new)) | Element `Sequence.variant.cigar` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.variant.cigar` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 17 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Pointer to observed variant information (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.variant.variantPointer (variantPointer) | is equivalent to | Extension (STU3: Pointer to observed variant information (new)) | Element `Sequence.variant.variantPointer` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.variant.variantPointer` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 18 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Sequence that was observed (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.observedSeq (observedSeq) | is equivalent to | Extension (STU3: Sequence that was observed (new)) | Element `Sequence.observedSeq` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.observedSeq` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 19 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: An set of value as quality of sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.quality (quality) | is equivalent to | Extension (STU3: An set of value as quality of sequence (new)) | Element `Sequence.quality` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.type (type) | is equivalent to | Extension.extension:type (STU3: indel | snp | unknown (new)) | Element `Sequence.quality.type` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.type` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.type` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.standardSequence (standardSequence) | is equivalent to | Extension.extension:standardSequence (STU3: Standard sequence for comparison (new)) | Element `Sequence.quality.standardSequence` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.standardSequence` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.standardSequence` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.start (start) | is equivalent to | Extension.extension:start (STU3: Start position of the sequence (new)) | Element `Sequence.quality.start` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.start` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.start` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.end (end) | is equivalent to | Extension.extension:end (STU3: End position of the sequence (new)) | Element `Sequence.quality.end` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.end` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.end` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.score (score) | is equivalent to | Extension.extension:score (STU3: Quality score for the comparison (new)) | Element `Sequence.quality.score` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.score` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.score` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.method (method) | is equivalent to | Extension.extension:method (STU3: Method to get quality (new)) | Element `Sequence.quality.method` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.method` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.method` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.truthTP (truthTP) | is equivalent to | Extension.extension:truthTP (STU3: True positives from the perspective of the truth data (new)) | Element `Sequence.quality.truthTP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.truthTP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.truthTP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.queryTP (queryTP) | is equivalent to | Extension.extension:queryTP (STU3: True positives from the perspective of the query data (new)) | Element `Sequence.quality.queryTP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.queryTP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.queryTP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.truthFN (truthFN) | is equivalent to | Extension.extension:truthFN (STU3: False negatives (new)) | Element `Sequence.quality.truthFN` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.truthFN` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.truthFN` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.queryFP (queryFP) | is equivalent to | Extension.extension:queryFP (STU3: False positives (new)) | Element `Sequence.quality.queryFP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.queryFP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.queryFP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.gtFP (gtFP) | is equivalent to | Extension.extension:gtFP (STU3: False positives where the non-REF alleles in the Truth and Query Call Sets match (new)) | Element `Sequence.quality.gtFP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.gtFP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.gtFP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.precision (precision) | is equivalent to | Extension.extension:precision (STU3: Precision of comparison (new)) | Element `Sequence.quality.precision` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.precision` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.precision` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.recall (recall) | is equivalent to | Extension.extension:recall (STU3: Recall of comparison (new)) | Element `Sequence.quality.recall` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.recall` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.recall` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.quality.fScore (fScore) | is equivalent to | Extension.extension:fScore (STU3: F-score (new)) | Element `Sequence.quality.fScore` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension. Element `Sequence.quality.fScore` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.quality.fScore` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 20 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Average number of reads representing a given nucleotide in the reconstructed sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.readCoverage (readCoverage) | is equivalent to | Extension (STU3: Average number of reads representing a given nucleotide in the reconstructed sequence (new)) | Element `Sequence.readCoverage` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.readCoverage` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 21 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: External repository which contains detailed report related with observedSeq in this resource (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.repository (repository) | is equivalent to | Extension (STU3: External repository which contains detailed report related with observedSeq in this resource (new)) | Element `Sequence.repository` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.repository.type (type) | is equivalent to | Extension.extension:type (STU3: directlink | openapi | login | oauth | other (new)) | Element `Sequence.repository.type` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension. Element `Sequence.repository.type` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository.type` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.repository.url (url) | is equivalent to | Extension.extension:url (STU3: URI of the repository (new)) | Element `Sequence.repository.url` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension. Element `Sequence.repository.url` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository.url` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.repository.name (name) | is equivalent to | Extension.extension:name (STU3: Repository's name (new)) | Element `Sequence.repository.name` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension. Element `Sequence.repository.name` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository.name` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.repository.datasetId (datasetId) | is equivalent to | Extension.extension:datasetId (STU3: Id of the dataset that used to call for dataset in repository (new)) | Element `Sequence.repository.datasetId` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension. Element `Sequence.repository.datasetId` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository.datasetId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.repository.variantsetId (variantsetId) | is equivalent to | Extension.extension:variantsetId (STU3: Id of the variantset that used to call for variantset in repository (new)) | Element `Sequence.repository.variantsetId` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension. Element `Sequence.repository.variantsetId` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository.variantsetId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
| Sequence.repository.readsetId (readsetId) | is equivalent to | Extension.extension:readsetId (STU3: Id of the read (new)) | Element `Sequence.repository.readsetId` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension. Element `Sequence.repository.readsetId` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.repository.readsetId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
Group 22 Mapping from http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2 to STU3: Pointer to next atomic sequence (new)version: 0.1.0)
| Source Code | Relationship | Target Code | Comment |
| Sequence.pointer (pointer) | is equivalent to | Extension (STU3: Pointer to next atomic sequence (new)) | Element `Sequence.pointer` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`. Element `Sequence.pointer` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element). |
{
"resourceType": "ConceptMap",
"id": "R3-Sequence-element-map-to-R5",
"text": {
"status": "generated",
"div": "<!-- snip (see above) -->"
},
"extension": [
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-wg",
"valueCode": "fhir"
},
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-fmm",
"valueInteger": 0,
"_valueInteger": {
"extension": [
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom",
"valueCanonical": "http://hl7.org/fhir/uv/xver/ImplementationGuide/hl7.fhir.uv.xver-r3.r5"
}
]
}
},
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-standards-status",
"valueCode": "trial-use",
"_valueCode": {
"extension": [
{
"url": "http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom",
"valueCanonical": "http://hl7.org/fhir/uv/xver/ImplementationGuide/hl7.fhir.uv.xver-r3.r5"
}
]
}
}
],
"url": "http://hl7.org/fhir/uv/xver/ConceptMap/R3-Sequence-element-map-to-R5",
"version": "0.1.0",
"name": "R3SequenceElementMapToR5",
"title": "Cross-version mapping for FHIR STU3 Sequence to FHIR R5 MolecularSequence",
"status": "active",
"experimental": false,
"date": "2026-03-17T16:05:00.458892-05:00",
"contact": [
{
"name": "FHIR Infrastructure",
"telecom": [
{
"system": "url",
"value": "http://www.hl7.org/Special/committees/fiwg"
}
]
}
],
"description": "This ConceptMap represents cross-version mappings for elements from a FHIR STU3 Sequence to FHIR R5.",
"jurisdiction": [
{
"coding": [
{
"system": "http://unstats.un.org/unsd/methods/m49/m49.htm",
"code": "001",
"display": "World"
}
]
}
],
"sourceScopeCanonical": "http://hl7.org/fhir/3.0",
"targetScopeUri": "http://hl7.org/fhir/5.0",
"group": [
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/StructureDefinition/MolecularSequence|5.0.0",
"element": [
{
"code": "Sequence.meta",
"display": "meta",
"target": [
{
"code": "MolecularSequence.meta",
"display": "MolecularSequence.meta",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.meta` is mapped to FHIR R5 element `MolecularSequence.meta` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.meta` do not cover the following types: Meta.\nThe mappings for `Sequence.meta` do not cover the following types based on type expansion: lastUpdated, profile, security, tag, versionId."
}
]
},
{
"code": "Sequence.implicitRules",
"display": "implicitRules",
"target": [
{
"code": "MolecularSequence.implicitRules",
"display": "MolecularSequence.implicitRules",
"relationship": "equivalent",
"comment": "Element `Sequence.implicitRules` is mapped to FHIR R5 element `MolecularSequence.implicitRules` as `Equivalent`.\nAsserting this rule set restricts the content to be only understood by a limited set of trading partners. This inherently limits the usefulness of the data in the long term. However, the existing health eco-system is highly fractured, and not yet ready to define, collect, and exchange data in a generally computable sense. Wherever possible, implementers and/or specification writers should avoid using this element. \n\nThis element is labelled as a modifier because the implicit rules may provide additional knowledge about the resource that modifies it's meaning or interpretation."
}
]
},
{
"code": "Sequence.language",
"display": "language",
"target": [
{
"code": "MolecularSequence.language",
"display": "MolecularSequence.language",
"relationship": "equivalent",
"comment": "Element `Sequence.language` is mapped to FHIR R5 element `MolecularSequence.language` as `Equivalent`.\nLanguage is provided to support indexing and accessibility (typically, services such as text to speech use the language tag). The html language tag in the narrative applies to the narrative. The language tag on the resource may be used to specify the language of other presentations generated from the data in the resource Not all the content has to be in the base language. The Resource.language should not be assumed to apply to the narrative automatically. If a language is specified, it should it also be specified on the div element in the html (see rules in HTML5 for information about the relationship between xml:lang and the html lang attribute)."
}
]
},
{
"code": "Sequence.text",
"display": "text",
"target": [
{
"code": "MolecularSequence.text",
"display": "MolecularSequence.text",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.text` is mapped to FHIR R5 element `MolecularSequence.text` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.text` do not cover the following types: Narrative.\nThe mappings for `Sequence.text` do not cover the following types based on type expansion: div, status.\nContained resources do not have narrative. Resources that are not contained SHOULD have a narrative. In some cases, a resource may only have text with little or no additional discrete data (as long as all minOccurs=1 elements are satisfied). This may be necessary for data from legacy systems where information is captured as a \"text blob\" or where text is additionally entered raw or narrated and encoded in formation is added later."
}
]
},
{
"code": "Sequence.contained",
"display": "contained",
"target": [
{
"code": "MolecularSequence.contained",
"display": "MolecularSequence.contained",
"relationship": "equivalent",
"comment": "Element `Sequence.contained` is mapped to FHIR R5 element `MolecularSequence.contained` as `SourceIsBroaderThanTarget`.\nThis should never be done when the content can be identified properly, as once identification is lost, it is extremely difficult (and context dependent) to restore it again."
}
]
},
{
"code": "Sequence.identifier",
"display": "identifier",
"target": [
{
"code": "MolecularSequence.identifier",
"display": "MolecularSequence.identifier",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.identifier` is mapped to FHIR R5 element `MolecularSequence.identifier` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.identifier` do not cover the following types: Identifier.\nThe mappings for `Sequence.identifier` do not cover the following types based on type expansion: assigner, period, system, type, use, value."
}
]
},
{
"code": "Sequence.type",
"display": "type",
"target": [
{
"code": "MolecularSequence.type",
"display": "MolecularSequence.type",
"relationship": "equivalent",
"comment": "Element `Sequence.type` is mapped to FHIR R5 element `MolecularSequence.type` as `Equivalent`."
}
]
},
{
"code": "Sequence.patient",
"display": "patient",
"target": [
{
"code": "MolecularSequence.subject",
"display": "MolecularSequence.subject",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.patient` is mapped to FHIR R5 element `MolecularSequence.subject` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.patient` do not cover the following types based on type expansion: display, identifier, reference.\nThe standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.patient` with unmapped reference targets: Patient."
}
]
},
{
"code": "Sequence.specimen",
"display": "specimen",
"target": [
{
"code": "MolecularSequence.specimen",
"display": "MolecularSequence.specimen",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.specimen` is mapped to FHIR R5 element `MolecularSequence.specimen` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.specimen` do not cover the following types based on type expansion: display, identifier, reference.\nThe standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.specimen` with unmapped reference targets: Specimen."
}
]
},
{
"code": "Sequence.device",
"display": "device",
"target": [
{
"code": "MolecularSequence.device",
"display": "MolecularSequence.device",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.device` is mapped to FHIR R5 element `MolecularSequence.device` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.device` do not cover the following types based on type expansion: display, identifier, reference.\nThe standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.device` with unmapped reference targets: Device."
}
]
},
{
"code": "Sequence.performer",
"display": "performer",
"target": [
{
"code": "MolecularSequence.performer",
"display": "MolecularSequence.performer",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.performer` is mapped to FHIR R5 element `MolecularSequence.performer` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.performer` do not cover the following types based on type expansion: display, identifier, reference.\nThe standard extension `alternate-reference` has been mapped as the representation of FHIR STU3 element `Sequence.performer` with unmapped reference targets: Organization."
}
]
},
{
"code": "Sequence.referenceSeq",
"display": "referenceSeq",
"target": [
{
"code": "MolecularSequence.relative",
"display": "MolecularSequence.relative",
"relationship": "related-to",
"comment": "Element `Sequence.referenceSeq` is mapped to FHIR R5 element `MolecularSequence.relative` as `SourceIsNarrowerThanTarget`."
}
]
},
{
"code": "Sequence.referenceSeq.chromosome",
"display": "chromosome",
"target": [
{
"code": "MolecularSequence.relative.startingSequence.chromosome",
"display": "MolecularSequence.relative.startingSequence.chromosome",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.chromosome` is mapped to FHIR R5 element `MolecularSequence.relative.startingSequence.chromosome` as `Equivalent`."
}
]
},
{
"code": "Sequence.referenceSeq.strand",
"display": "strand",
"target": [
{
"code": "MolecularSequence.relative.startingSequence.strand",
"display": "MolecularSequence.relative.startingSequence.strand",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.referenceSeq.strand` is mapped to FHIR R5 element `MolecularSequence.relative.startingSequence.strand` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.referenceSeq.strand` do not cover the following types: integer.\nThe mappings for `Sequence.referenceSeq.strand` do not cover the following types based on type expansion: value."
}
]
},
{
"code": "Sequence.variant",
"display": "variant",
"target": [
{
"code": "MolecularSequence.relative",
"display": "MolecularSequence.relative",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.variant` is mapped to FHIR R5 element `MolecularSequence.relative` as `Equivalent`."
}
]
},
{
"code": "Sequence.variant.observedAllele",
"display": "observedAllele",
"target": [
{
"code": "MolecularSequence.relative.edit.replacementSequence",
"display": "MolecularSequence.relative.edit.replacementSequence",
"relationship": "equivalent",
"comment": "Element `Sequence.variant.observedAllele` is mapped to FHIR R5 element `MolecularSequence.relative.edit.replacementSequence` as `Equivalent`."
}
]
},
{
"code": "Sequence.variant.referenceAllele",
"display": "referenceAllele",
"target": [
{
"code": "MolecularSequence.relative.edit.replacedSequence",
"display": "MolecularSequence.relative.edit.replacedSequence",
"relationship": "equivalent",
"comment": "Element `Sequence.variant.referenceAllele` is mapped to FHIR R5 element `MolecularSequence.relative.edit.replacedSequence` as `Equivalent`."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.meta|0.1.0",
"element": [
{
"code": "Sequence.meta",
"display": "meta",
"target": [
{
"code": "Extension",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.meta` is mapped to FHIR R5 element `MolecularSequence.meta` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.meta` do not cover the following types: Meta.\nThe mappings for `Sequence.meta` do not cover the following types based on type expansion: lastUpdated, profile, security, tag, versionId."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.text|0.1.0",
"element": [
{
"code": "Sequence.text",
"display": "text",
"target": [
{
"code": "Extension",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.text` is mapped to FHIR R5 element `MolecularSequence.text` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.text` do not cover the following types: Narrative.\nThe mappings for `Sequence.text` do not cover the following types based on type expansion: div, status.\nContained resources do not have narrative. Resources that are not contained SHOULD have a narrative. In some cases, a resource may only have text with little or no additional discrete data (as long as all minOccurs=1 elements are satisfied). This may be necessary for data from legacy systems where information is captured as a \"text blob\" or where text is additionally entered raw or narrated and encoded in formation is added later."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.identifier|0.1.0",
"element": [
{
"code": "Sequence.identifier",
"display": "identifier",
"target": [
{
"code": "Extension",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.identifier` is mapped to FHIR R5 element `MolecularSequence.identifier` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.identifier` do not cover the following types: Identifier.\nThe mappings for `Sequence.identifier` do not cover the following types based on type expansion: assigner, period, system, type, use, value."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.coordinateSystem|0.1.0",
"element": [
{
"code": "Sequence.coordinateSystem",
"display": "coordinateSystem",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.coordinateSystem` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.coordinateSystem` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.quantity|0.1.0",
"element": [
{
"code": "Sequence.quantity",
"display": "quantity",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.quantity` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quantity` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.genomeBuild|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.genomeBuild",
"display": "genomeBuild",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.genomeBuild` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.referenceSeq.genomeBuild` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.referenceSeqId|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.referenceSeqId",
"display": "referenceSeqId",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.referenceSeqId` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.referenceSeq.referenceSeqId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.referenceSeqPointer|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.referenceSeqPointer",
"display": "referenceSeqPointer",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.referenceSeqPointer` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.referenceSeq.referenceSeqPointer` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.referenceSeqString|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.referenceSeqString",
"display": "referenceSeqString",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.referenceSeqString` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.referenceSeq.referenceSeqString` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.strand|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.strand",
"display": "strand",
"target": [
{
"code": "Extension",
"relationship": "source-is-broader-than-target",
"comment": "Element `Sequence.referenceSeq.strand` is mapped to FHIR R5 element `MolecularSequence.relative.startingSequence.strand` as `SourceIsBroaderThanTarget`.\nThe mappings for `Sequence.referenceSeq.strand` do not cover the following types: integer.\nThe mappings for `Sequence.referenceSeq.strand` do not cover the following types based on type expansion: value."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.windowStart|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.windowStart",
"display": "windowStart",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.windowStart` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.referenceSeq.windowStart` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.referenceSeq.windowEnd|0.1.0",
"element": [
{
"code": "Sequence.referenceSeq.windowEnd",
"display": "windowEnd",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.referenceSeq.windowEnd` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.referenceSeq.windowEnd` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.variant.start|0.1.0",
"element": [
{
"code": "Sequence.variant.start",
"display": "start",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.variant.start` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.variant.start` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.variant.end|0.1.0",
"element": [
{
"code": "Sequence.variant.end",
"display": "end",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.variant.end` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.variant.end` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.variant.cigar|0.1.0",
"element": [
{
"code": "Sequence.variant.cigar",
"display": "cigar",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.variant.cigar` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.variant.cigar` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.variant.variantPointer|0.1.0",
"element": [
{
"code": "Sequence.variant.variantPointer",
"display": "variantPointer",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.variant.variantPointer` has a context of MolecularSequence.relative based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.variant.variantPointer` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.observedSeq|0.1.0",
"element": [
{
"code": "Sequence.observedSeq",
"display": "observedSeq",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.observedSeq` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.observedSeq` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.quality|0.1.0",
"element": [
{
"code": "Sequence.quality",
"display": "quality",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.quality` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.type",
"display": "type",
"target": [
{
"code": "Extension.extension:type",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.type` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.type` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.type` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.standardSequence",
"display": "standardSequence",
"target": [
{
"code": "Extension.extension:standardSequence",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.standardSequence` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.standardSequence` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.standardSequence` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.start",
"display": "start",
"target": [
{
"code": "Extension.extension:start",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.start` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.start` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.start` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.end",
"display": "end",
"target": [
{
"code": "Extension.extension:end",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.end` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.end` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.end` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.score",
"display": "score",
"target": [
{
"code": "Extension.extension:score",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.score` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.score` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.score` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.method",
"display": "method",
"target": [
{
"code": "Extension.extension:method",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.method` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.method` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.method` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.truthTP",
"display": "truthTP",
"target": [
{
"code": "Extension.extension:truthTP",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.truthTP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.truthTP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.truthTP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.queryTP",
"display": "queryTP",
"target": [
{
"code": "Extension.extension:queryTP",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.queryTP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.queryTP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.queryTP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.truthFN",
"display": "truthFN",
"target": [
{
"code": "Extension.extension:truthFN",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.truthFN` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.truthFN` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.truthFN` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.queryFP",
"display": "queryFP",
"target": [
{
"code": "Extension.extension:queryFP",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.queryFP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.queryFP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.queryFP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.gtFP",
"display": "gtFP",
"target": [
{
"code": "Extension.extension:gtFP",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.gtFP` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.gtFP` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.gtFP` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.precision",
"display": "precision",
"target": [
{
"code": "Extension.extension:precision",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.precision` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.precision` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.precision` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.recall",
"display": "recall",
"target": [
{
"code": "Extension.extension:recall",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.recall` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.recall` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.recall` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.quality.fScore",
"display": "fScore",
"target": [
{
"code": "Extension.extension:fScore",
"relationship": "equivalent",
"comment": "Element `Sequence.quality.fScore` is part of an existing definition because parent element `Sequence.quality` requires a cross-version extension.\nElement `Sequence.quality.fScore` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.quality.fScore` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.readCoverage|0.1.0",
"element": [
{
"code": "Sequence.readCoverage",
"display": "readCoverage",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.readCoverage` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.readCoverage` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.repository|0.1.0",
"element": [
{
"code": "Sequence.repository",
"display": "repository",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.repository` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.repository.type",
"display": "type",
"target": [
{
"code": "Extension.extension:type",
"relationship": "equivalent",
"comment": "Element `Sequence.repository.type` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension.\nElement `Sequence.repository.type` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository.type` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.repository.url",
"display": "url",
"target": [
{
"code": "Extension.extension:url",
"relationship": "equivalent",
"comment": "Element `Sequence.repository.url` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension.\nElement `Sequence.repository.url` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository.url` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.repository.name",
"display": "name",
"target": [
{
"code": "Extension.extension:name",
"relationship": "equivalent",
"comment": "Element `Sequence.repository.name` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension.\nElement `Sequence.repository.name` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository.name` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.repository.datasetId",
"display": "datasetId",
"target": [
{
"code": "Extension.extension:datasetId",
"relationship": "equivalent",
"comment": "Element `Sequence.repository.datasetId` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension.\nElement `Sequence.repository.datasetId` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository.datasetId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.repository.variantsetId",
"display": "variantsetId",
"target": [
{
"code": "Extension.extension:variantsetId",
"relationship": "equivalent",
"comment": "Element `Sequence.repository.variantsetId` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension.\nElement `Sequence.repository.variantsetId` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository.variantsetId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
},
{
"code": "Sequence.repository.readsetId",
"display": "readsetId",
"target": [
{
"code": "Extension.extension:readsetId",
"relationship": "equivalent",
"comment": "Element `Sequence.repository.readsetId` is part of an existing definition because parent element `Sequence.repository` requires a cross-version extension.\nElement `Sequence.repository.readsetId` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.repository.readsetId` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
},
{
"source": "http://hl7.org/fhir/StructureDefinition/Sequence|3.0.2",
"target": "http://hl7.org/fhir/3.0/StructureDefinition/extension-Sequence.pointer|0.1.0",
"element": [
{
"code": "Sequence.pointer",
"display": "pointer",
"target": [
{
"code": "Extension",
"relationship": "equivalent",
"comment": "Element `Sequence.pointer` has a context of MolecularSequence based on following the parent source element upwards and mapping to `MolecularSequence`.\nElement `Sequence.pointer` has no mapping targets in FHIR R5. Typically, this is because the element has been added (is a new element)."
}
]
}
]
}
]
}