Extensions for Using Data Elements from FHIR R4 in FHIR STU3
0.1.0 - STU
Extensions for Using Data Elements from FHIR R4 in FHIR STU3
0.1.0 - STU
Extensions for Using Data Elements from FHIR R4 in FHIR STU3 - Downloaded Version null See the Directory of published versions
| Page standards status: Trial-use | Maturity Level: 0 |
XML representation of the profile-MolecularSequence-for-Sequence resource profile.
<StructureDefinition xmlns="http://hl7.org/fhir">
<id value="profile-MolecularSequence-for-Sequence"/>
<text>
<status value="extensions"/>
<div xmlns="http://www.w3.org/1999/xhtml"><p class="res-header-id"><b>Generated Narrative: StructureDefinition profile-MolecularSequence-for-Sequence</b></p><a name="profile-MolecularSequence-for-Sequence"> </a><a name="hcprofile-MolecularSequence-for-Sequence"> </a><table border="0" cellpadding="0" cellspacing="0" style="border: 0px #F0F0F0 solid; font-size: 11px; font-family: verdana; vertical-align: top;"><tr style="border: 1px #F0F0F0 solid; font-size: 11px; font-family: verdana; vertical-align: top"><th style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; padding-top: 3px; padding-bottom: 3px" class="hierarchy"><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="The logical name of the element">Name</a></th><th style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; padding-top: 3px; padding-bottom: 3px" class="hierarchy"><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="Information about the use of the element">Flags</a></th><th style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; padding-top: 3px; padding-bottom: 3px" class="hierarchy"><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="Minimum and Maximum # of times the element can appear in the instance">Card.</a></th><th style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; padding-top: 3px; padding-bottom: 3px; width: 100px" class="hierarchy"><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="Reference to the type of the element">Type</a></th><th style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; padding-top: 3px; padding-bottom: 3px" class="hierarchy"><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="Additional information about the element">Description & Constraints</a><span style="float: right"><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="Legend for this format"><img src="data:image/png;base64,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" alt="doco" style="background-color: inherit"/></a></span></th></tr><tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck1.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_resource.png" alt="." style="background-color: white; background-color: inherit" title="Resource" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence">Sequence</a><a name="Sequence"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">0</span><span style="opacity: 0.5">..</span><span style="opacity: 0.5">*</span></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a href="http://hl7.org/fhir/STU3/sequence.html">Sequence</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">Information about a biological sequence</span></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck13.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_extension_simple.png" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Simple Extension" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.extension">Slices for extension</a><a name="Sequence.extension"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..*</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a style="opacity: 0.5; opacity: 0.5" href="http://hl7.org/fhir/STU3/extensibility.html#Extension">Extension</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">Extension</span><br/><span style="font-weight:bold">Slice: </span>Unordered, Open by value:url<br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck124.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end_slicer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_slice_item.png" alt="." style="background-color: white; background-color: inherit" title="Slice Item" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.extension:structureVariant" title="Extension URL = http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.structureVariant">extension:structureVariant</a><a name="Sequence.extension.2"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..*</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">(Complex)</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">R4: Structural variant (new)<br/><span style="font-weight:bold">URL: </span><a href="StructureDefinition-ext-R4-MolecularSequence.structureVariant.html">http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.structureVariant</a><br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck11.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_element.gif" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Element" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.type">type</a><a name="Sequence.type"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck103.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_extension_simple.png" alt="." style="background-color: white; background-color: inherit" title="Simple Extension" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.type.extension">Slices for extension</a><a name="Sequence.type.extension"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..*</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a style="opacity: 0.5; opacity: 0.5" href="http://hl7.org/fhir/STU3/extensibility.html#Extension">Extension</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">Extension</span><br/><span style="font-weight:bold">Slice: </span>Unordered, Open by value:url<br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck1024.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end_slicer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_slice_item.png" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Slice Item" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.type.extension:type" title="Extension URL = http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.type">extension:type</a><a name="Sequence.type.extension.2"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..1</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a href="http://hl7.org/fhir/STU3/datatypes.html#code">code</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">R4: type<br/><span style="font-weight:bold">URL: </span><a href="StructureDefinition-ext-R4-MolecularSequence.type.html">http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.type</a><br class="binding"/><span style="font-weight:bold" title="null" class="binding">Binding: </span><a href="http://hl7.org/fhir/STU3/valueset-sequence-type.html" title="http://hl7.org/fhir/ValueSet/sequence-type" class="binding">sequenceType</a><span title="null" class="binding"> (</span><a href="http://hl7.org/fhir/STU3/terminologies.html#required" title="To be conformant, the concept in this element SHALL be from the specified value set." class="binding">required</a><span title="null" class="binding">)</span><span title="null" class="binding">: </span><span title="null" class="binding">Type if a sequence -- DNA, RNA, or amino acid sequence.</span><br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck11.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_element.gif" alt="." style="background-color: white; background-color: inherit" title="Element" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.referenceSeq">referenceSeq</a><a name="Sequence.referenceSeq"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck113.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_extension_simple.png" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Simple Extension" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.referenceSeq.extension">Slices for extension</a><a name="Sequence.referenceSeq.extension"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..*</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a style="opacity: 0.5; opacity: 0.5" href="http://hl7.org/fhir/STU3/extensibility.html#Extension">Extension</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">Extension</span><br/><span style="font-weight:bold">Slice: </span>Unordered, Open by value:url<br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck1124.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end_slicer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_slice_item.png" alt="." style="background-color: white; background-color: inherit" title="Slice Item" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.referenceSeq.extension:orientation" title="Extension URL = http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.orientation">extension:orientation</a><a name="Sequence.referenceSeq.extension.2"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..1</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a href="http://hl7.org/fhir/STU3/datatypes.html#code">code</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">R4: sense | antisense (new)<br/><span style="font-weight:bold">URL: </span><a href="StructureDefinition-ext-R4-MolecularSequence.ref.orientation.html">http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.orientation</a><br class="binding"/><span style="font-weight:bold" title="null" class="binding">Binding: </span><a href="ValueSet-R4-orientation-type-for-R3.html" title="http://hl7.org/fhir/uv/xver/ValueSet/R4-orientation-type-for-R3" class="binding">R4OrientationTypeForR3 (0.1.0)</a><span title="null" class="binding"> (</span><a href="http://hl7.org/fhir/STU3/terminologies.html#required" title="To be conformant, the concept in this element SHALL be from the specified value set." class="binding">required</a><span title="null" class="binding">)</span><span title="null" class="binding">: </span><span title="null" class="binding">Type for orientation.</span><br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck101.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_element.gif" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Element" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.referenceSeq.strand">strand</a><a name="Sequence.referenceSeq.strand"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck1003.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_extension_simple.png" alt="." style="background-color: white; background-color: inherit" title="Simple Extension" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.referenceSeq.strand.extension">Slices for extension</a><a name="Sequence.referenceSeq.strand.extension"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..*</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a style="opacity: 0.5; opacity: 0.5" href="http://hl7.org/fhir/STU3/extensibility.html#Extension">Extension</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">Extension</span><br/><span style="font-weight:bold">Slice: </span>Unordered, Open by value:url<br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck10024.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vline.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end_slicer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_slice_item.png" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Slice Item" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.referenceSeq.strand.extension:strand" title="Extension URL = http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.strand">extension:strand</a><a name="Sequence.referenceSeq.strand.extension.2"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..1</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a href="http://hl7.org/fhir/STU3/datatypes.html#code">code</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">R4: watson | crick additional types<br/><span style="font-weight:bold">URL: </span><a href="StructureDefinition-ext-R4-MolecularSequence.ref.strand.html">http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.strand</a><br class="binding"/><span style="font-weight:bold" title="null" class="binding">Binding: </span><a href="ValueSet-R4-strand-type-for-R3.html" title="http://hl7.org/fhir/uv/xver/ValueSet/R4-strand-type-for-R3" class="binding">R4StrandTypeForR3 (0.1.0)</a><span title="null" class="binding"> (</span><a href="http://hl7.org/fhir/STU3/terminologies.html#required" title="To be conformant, the concept in this element SHALL be from the specified value set." class="binding">required</a><span title="null" class="binding">)</span><span title="null" class="binding">: </span><span title="null" class="binding">Type for strand.</span><br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck01.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_element.gif" alt="." style="background-color: white; background-color: inherit" title="Element" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.quality">quality</a><a name="Sequence.quality"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: #F7F7F7"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck003.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_extension_simple.png" alt="." style="background-color: #F7F7F7; background-color: inherit" title="Simple Extension" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.quality.extension">Slices for extension</a><a name="Sequence.quality.extension"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..*</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><a style="opacity: 0.5; opacity: 0.5" href="http://hl7.org/fhir/STU3/extensibility.html#Extension">Extension</a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: #F7F7F7; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"><span style="opacity: 0.5">Extension</span><br/><span style="font-weight:bold">Slice: </span>Unordered, Open by value:url<br/></td></tr>
<tr style="border: 0px #F0F0F0 solid; padding:0px; vertical-align: top; background-color: white"><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px; white-space: nowrap; background-image: url(tbl_bck0024.png)" class="hierarchy"><img src="tbl_spacer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_blank.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="tbl_vjoin_end_slicer.png" alt="." style="background-color: inherit" class="hierarchy"/><img src="icon_slice_item.png" alt="." style="background-color: white; background-color: inherit" title="Slice Item" class="hierarchy"/> <a href="StructureDefinition-profile-MolecularSequence-for-Sequence-definitions.html#Sequence.quality.extension:roc" title="Extension URL = http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.quality.roc">extension:roc</a><a name="Sequence.quality.extension.2"> </a></td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy"/><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">0..1</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">(Complex)</td><td style="vertical-align: top; text-align : var(--ig-left,left); background-color: white; border: 0px #F0F0F0 solid; padding:0px 4px 0px 4px" class="hierarchy">R4: Receiver Operator Characteristic (ROC) Curve (new)<br/><span style="font-weight:bold">URL: </span><a href="StructureDefinition-ext-R4-MolecularSequence.qua.roc.html">http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.quality.roc</a><br/></td></tr>
<tr><td colspan="5" class="hierarchy"><br/><a href="https://build.fhir.org/ig/FHIR/ig-guidance/readingIgs.html#table-views" title="Legend for this format"><img src="data:image/png;base64,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" alt="doco" style="background-color: inherit"/> Documentation for this format</a></td></tr></table></div>
</text>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-wg">
<valueCode value="fhir"/>
</extension>
<extension url="http://hl7.org/fhir/StructureDefinition/package-source">
<extension url="packageId">
<valueId value="hl7.fhir.uv.xver-r4.r3"/>
</extension>
<extension url="version">
<valueString value="0.1.0"/>
</extension>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-fmm">
<valueInteger value="0">
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom">
<valueUri
value="http://hl7.org/fhir/uv/xver/ImplementationGuide/hl7.fhir.uv.xver-r4.r3"/>
</extension>
</valueInteger>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-standards-status">
<valueCode value="trial-use">
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-conformance-derivedFrom">
<valueUri
value="http://hl7.org/fhir/uv/xver/ImplementationGuide/hl7.fhir.uv.xver-r4.r3"/>
</extension>
</valueCode>
</extension>
<url
value="http://hl7.org/fhir/4.0/StructureDefinition/profile-MolecularSequence-for-Sequence"/>
<version value="0.1.0"/>
<name value="Profile_R4_MolecularSequence_R3_Sequence"/>
<title
value="Cross-version Profile for R4.MolecularSequence for use in FHIR STU3"/>
<status value="active"/>
<experimental value="false"/>
<date value="2026-03-17T16:03:29.779891-05:00"/>
<publisher value="FHIR Infrastructure"/>
<contact>
<name value="FHIR Infrastructure"/>
<telecom>
<system value="url"/>
<value value="http://www.hl7.org/Special/committees/fiwg"/>
</telecom>
</contact>
<description
value="This cross-version profile allows R4 MolecularSequence content to be represented via FHIR STU3 Sequence resources."/>
<jurisdiction>
<coding>
<system value="http://unstats.un.org/unsd/methods/m49/m49.htm"/>
<code value="001"/>
<display value="World"/>
</coding>
</jurisdiction>
<fhirVersion value="3.0.2"/>
<mapping>
<identity value="w5"/>
<uri value="http://hl7.org/fhir/w5"/>
<name value="W5 Mapping"/>
</mapping>
<mapping>
<identity value="rim"/>
<uri value="http://hl7.org/v3"/>
<name value="RIM Mapping"/>
</mapping>
<kind value="resource"/>
<abstract value="false"/>
<type value="Sequence"/>
<baseDefinition value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
<derivation value="constraint"/>
<snapshot>
<element id="Sequence">
<path value="Sequence"/>
<short value="Information about a biological sequence"/>
<definition value="Raw data describing a biological sequence."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Sequence"/>
<min value="0"/>
<max value="*"/>
</base>
<constraint>
<key value="dom-2"/>
<severity value="error"/>
<human
value="If the resource is contained in another resource, it SHALL NOT contain nested Resources"/>
<expression value="contained.contained.empty()"/>
<xpath value="not(parent::f:contained and f:contained)"/>
<source
value="http://hl7.org/fhir/StructureDefinition/DomainResource"/>
</constraint>
<constraint>
<key value="dom-1"/>
<severity value="error"/>
<human
value="If the resource is contained in another resource, it SHALL NOT contain any narrative"/>
<expression value="contained.text.empty()"/>
<xpath value="not(parent::f:contained and f:text)"/>
<source
value="http://hl7.org/fhir/StructureDefinition/DomainResource"/>
</constraint>
<constraint>
<key value="dom-4"/>
<severity value="error"/>
<human
value="If a resource is contained in another resource, it SHALL NOT have a meta.versionId or a meta.lastUpdated"/>
<expression
value="contained.meta.versionId.empty() and contained.meta.lastUpdated.empty()"/>
<xpath
value="not(exists(f:contained/*/f:meta/f:versionId)) and not(exists(f:contained/*/f:meta/f:lastUpdated))"/>
<source
value="http://hl7.org/fhir/StructureDefinition/DomainResource"/>
</constraint>
<constraint>
<key value="dom-3"/>
<severity value="error"/>
<human
value="If the resource is contained in another resource, it SHALL be referred to from elsewhere in the resource"/>
<expression
value="contained.where(('#'+id in %resource.descendants().reference).not()).empty()"/>
<xpath
value="not(exists(for $id in f:contained/*/@id return $id[not(ancestor::f:contained/parent::*/descendant::f:reference/@value=concat('#', $id))]))"/>
<source
value="http://hl7.org/fhir/StructureDefinition/DomainResource"/>
</constraint>
<constraint>
<key value="seq-3"/>
<severity value="error"/>
<human value="Only 0 and 1 are valid for coordinateSystem"/>
<expression value="coordinateSystem = 1 or coordinateSystem = 0"/>
<xpath value="count(f:coordinateSystem[@value=0 and @value=1]) = 1"/>
<source value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
</constraint>
<mapping>
<identity value="rim"/>
<map value="Entity. Role, or Act"/>
</mapping>
<mapping>
<identity value="w5"/>
<map value="clinical.diagnostics"/>
</mapping>
</element>
<element id="Sequence.id">
<path value="Sequence.id"/>
<short value="Logical id of this artifact"/>
<definition
value="The logical id of the resource, as used in the URL for the resource. Once assigned, this value never changes."/>
<comment
value="The only time that a resource does not have an id is when it is being submitted to the server using a create operation."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Resource.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="id"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.meta">
<path value="Sequence.meta"/>
<short value="Metadata about the resource"/>
<definition
value="The metadata about the resource. This is content that is maintained by the infrastructure. Changes to the content may not always be associated with version changes to the resource."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Resource.meta"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Meta"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.implicitRules">
<path value="Sequence.implicitRules"/>
<short value="A set of rules under which this content was created"/>
<definition
value="A reference to a set of rules that were followed when the resource was constructed, and which must be understood when processing the content."/>
<comment
value="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."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Resource.implicitRules"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="uri"/>
</type>
<isModifier value="true"/>
<isSummary value="true"/>
</element>
<element id="Sequence.language">
<path value="Sequence.language"/>
<short value="Language of the resource content"/>
<definition
value="The base language in which the resource is written."/>
<comment
value="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)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Resource.language"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="code"/>
</type>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-maxValueSet">
<valueReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/all-languages|3.0.2"/>
</valueReference>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="Language"/>
</extension>
<strength value="extensible"/>
<description value="A human language."/>
<valueSetReference>🔗
<reference value="http://hl7.org/fhir/ValueSet/languages|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.text">
<path value="Sequence.text"/>
<short value="Text summary of the resource, for human interpretation"/>
<definition
value="A human-readable narrative that contains a summary of the resource, and may be used to represent the content of the resource to a human. The narrative need not encode all the structured data, but is required to contain sufficient detail to make it "clinically safe" for a human to just read the narrative. Resource definitions may define what content should be represented in the narrative to ensure clinical safety."/>
<comment
value="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."/>
<alias value="narrative"/>
<alias value="html"/>
<alias value="xhtml"/>
<alias value="display"/>
<min value="0"/>
<max value="1"/>
<base>
<path value="DomainResource.text"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Narrative"/>
</type>
<condition value="dom-1"/>
<mapping>
<identity value="rim"/>
<map value="Act.text?"/>
</mapping>
</element>
<element id="Sequence.contained">
<path value="Sequence.contained"/>
<short value="Contained, inline Resources"/>
<definition
value="These resources do not have an independent existence apart from the resource that contains them - they cannot be identified independently, and nor can they have their own independent transaction scope."/>
<comment
value="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."/>
<alias value="inline resources"/>
<alias value="anonymous resources"/>
<alias value="contained resources"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="DomainResource.contained"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Resource"/>
</type>
<mapping>
<identity value="rim"/>
<map value="N/A"/>
</mapping>
</element>
<element id="Sequence.extension">
<path value="Sequence.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<short value="Extension"/>
<definition value="An Extension"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
</element>
<element id="Sequence.extension:structureVariant">
<path value="Sequence.extension"/>
<sliceName value="structureVariant"/>
<short value="R4: Structural variant (new)"/>
<definition
value="R4: `MolecularSequence.structureVariant` (new:BackboneElement)"/>
<comment
value="Element `MolecularSequence.structureVariant` has a context of Sequence based on following the parent source element upwards and mapping to `Sequence`.
Element `MolecularSequence.structureVariant` has no mapping targets in FHIR STU3. Typically, this is because the element has been added (is a new element)."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.structureVariant|0.1.0"/>
</type>
<condition value="ele-1"/>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<constraint>
<key value="ext-1"/>
<severity value="error"/>
<human value="Must have either extensions or value[x], not both"/>
<expression value="extension.exists() != value.exists()"/>
<xpath
value="exists(f:extension)!=exists(f:*[starts-with(local-name(.), 'value')])"/>
<source value="http://hl7.org/fhir/StructureDefinition/Extension"/>
</constraint>
<isModifier value="false"/>
</element>
<element id="Sequence.modifierExtension">
<path value="Sequence.modifierExtension"/>
<short value="Extensions that cannot be ignored"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the resource, and that modifies the understanding of the element that contains it. Usually modifier elements provide negation or qualification. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="DomainResource.modifierExtension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<isModifier value="true"/>
<mapping>
<identity value="rim"/>
<map value="N/A"/>
</mapping>
</element>
<element id="Sequence.identifier">
<path value="Sequence.identifier"/>
<short
value="Unique ID for this particular sequence. This is a FHIR-defined id"/>
<definition
value="A unique identifier for this particular sequence instance. This is a FHIR-defined id."/>
<requirements
value="Allows sequences to be distinguished and referenced."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Sequence.identifier"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Identifier"/>
</type>
<isSummary value="true"/>
<mapping>
<identity value="w5"/>
<map value="id"/>
</mapping>
</element>
<element id="Sequence.type">
<path value="Sequence.type"/>
<short value="aa | dna | rna"/>
<definition value="Amino Acid Sequence/ DNA Sequence / RNA Sequence."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.type"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="code"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="sequenceType"/>
</extension>
<strength value="example"/>
<description
value="Type if a sequence -- DNA, RNA, or amino acid sequence"/>
<valueSetReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/sequence-type|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.type.id">
<path value="Sequence.type.id"/>
<representation value="xmlAttr"/>
<short value="xml:id (or equivalent in JSON)"/>
<definition
value="unique id for the element within a resource (for internal references)"/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
</element>
<element id="Sequence.type.extension">
<path value="Sequence.type.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<short value="Extension"/>
<definition value="An Extension"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
</element>
<element id="Sequence.type.extension:type">
<path value="Sequence.type.extension"/>
<sliceName value="type"/>
<short value="R4: type"/>
<definition value="R4: `MolecularSequence.type`"/>
<comment
value="Element `MolecularSequence.type` is mapped to FHIR STU3 element `Sequence.type` as `Equivalent`."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.type|0.1.0"/>
</type>
<condition value="ele-1"/>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<constraint>
<key value="ext-1"/>
<severity value="error"/>
<human value="Must have either extensions or value[x], not both"/>
<expression value="extension.exists() != value.exists()"/>
<xpath
value="exists(f:extension)!=exists(f:*[starts-with(local-name(.), 'value')])"/>
<source value="http://hl7.org/fhir/StructureDefinition/Extension"/>
</constraint>
<isModifier value="false"/>
</element>
<element id="Sequence.type.value">
<path value="Sequence.type.value"/>
<representation value="xmlAttr"/>
<short value="Primitive value for code"/>
<definition value="Primitive value for code"/>
<min value="0"/>
<max value="1"/>
<base>
<path value="string.value"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-regex">
<valueString value="[^\s]+([\s]?[^\s]+)*"/>
</extension>
<code>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-json-type">
<valueString value="string"/>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-xml-type">
<valueString value="xsd:token"/>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-rdf-type">
<valueString value="xsd:token"/>
</extension>
</code>
</type>
</element>
<element id="Sequence.coordinateSystem">
<path value="Sequence.coordinateSystem"/>
<short
value="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)"/>
<definition
value="Whether the sequence is numbered starting at 0 (0-based numbering or coordinates, inclusive start, exclusive end) or starting at 1 (1-based numbering, inclusive start and inclusive end)."/>
<min value="1"/>
<max value="1"/>
<base>
<path value="Sequence.coordinateSystem"/>
<min value="1"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.patient">
<path value="Sequence.patient"/>
<short value="Who and/or what this is about"/>
<definition
value="The patient whose sequencing results are described by this resource."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.patient"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Patient"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.specimen">
<path value="Sequence.specimen"/>
<short value="Specimen used for sequencing"/>
<definition value="Specimen used for sequencing."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.specimen"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Specimen"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.device">
<path value="Sequence.device"/>
<short value="The method for sequencing"/>
<definition
value="The method for sequencing, for example, chip information."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.device"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Device"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.performer">
<path value="Sequence.performer"/>
<short value="Who should be responsible for test result"/>
<definition
value="The organization or lab that should be responsible for this result."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.performer"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Organization"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quantity">
<path value="Sequence.quantity"/>
<short
value="The number of copies of the seqeunce of interest. (RNASeq)"/>
<definition
value="The number of copies of the seqeunce of interest. (RNASeq)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quantity"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Quantity"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq">
<path value="Sequence.referenceSeq"/>
<short value="A sequence used as reference"/>
<definition
value="A sequence that is used as a reference to describe variants that are present in a sequence analyzed."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="BackboneElement"/>
</type>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<constraint>
<key value="seq-4"/>
<severity value="error"/>
<human value="Only +1 and -1 are valid for strand"/>
<expression value="strand.empty() or strand = 1 or strand = -1"/>
<xpath
value="not(exists(f:strand)) or count(f:strand[@value=-1 and @value=1]) = 1"/>
<source value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
</constraint>
<constraint>
<key value="seq-5"/>
<severity value="error"/>
<human
value="GenomeBuild and chromosome must be both contained if either one of them is contained"/>
<expression
value="(chromosome.empty() and genomeBuild.empty()) or (chromosome.exists() and genomeBuild.exists())"/>
<xpath
value="(exists(f:chromosome) and exists(f:genomeBuild)) or (not(exists(f:chromosome)) and not(exists(f:genomeBuild)))"/>
<source value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
</constraint>
<constraint>
<key value="seq-6"/>
<severity value="error"/>
<human
value="Have and only have one of the following elements in referenceSeq : 1. genomeBuild ; 2 referenceSeqId; 3. referenceSeqPointer; 4. referenceSeqString;"/>
<expression
value="(genomeBuild.count()+referenceSeqId.count()+ referenceSeqPointer.count()+ referenceSeqString.count()) = 1"/>
<xpath
value="count(f:genomeBuild)+count(f:referenceSeqId)+count(f:referenceSeqPointer)+count(f:referenceSeqString)=1"/>
<source value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
</constraint>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq.id">
<path value="Sequence.referenceSeq.id"/>
<representation value="xmlAttr"/>
<short value="xml:id (or equivalent in JSON)"/>
<definition
value="unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<mapping>
<identity value="rim"/>
<map value="n/a"/>
</mapping>
</element>
<element id="Sequence.referenceSeq.extension">
<path value="Sequence.referenceSeq.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<short value="Extension"/>
<definition value="An Extension"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
</element>
<element id="Sequence.referenceSeq.extension:orientation">
<path value="Sequence.referenceSeq.extension"/>
<sliceName value="orientation"/>
<short value="R4: sense | antisense (new)"/>
<definition
value="R4: `MolecularSequence.referenceSeq.orientation` (new:code)"/>
<comment
value="Element `MolecularSequence.referenceSeq.orientation` has a context of Sequence.referenceSeq based on following the parent source element upwards and mapping to `Sequence`.
Element `MolecularSequence.referenceSeq.orientation` has no mapping targets in FHIR STU3. Typically, this is because the element has been added (is a new element)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.orientation|0.1.0"/>
</type>
<condition value="ele-1"/>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<constraint>
<key value="ext-1"/>
<severity value="error"/>
<human value="Must have either extensions or value[x], not both"/>
<expression value="extension.exists() != value.exists()"/>
<xpath
value="exists(f:extension)!=exists(f:*[starts-with(local-name(.), 'value')])"/>
<source value="http://hl7.org/fhir/StructureDefinition/Extension"/>
</constraint>
<isModifier value="false"/>
</element>
<element id="Sequence.referenceSeq.modifierExtension">
<path value="Sequence.referenceSeq.modifierExtension"/>
<short value="Extensions that cannot be ignored"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the element, and that modifies the understanding of the element that contains it. Usually modifier elements provide negation or qualification. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<alias value="modifiers"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="BackboneElement.modifierExtension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<isModifier value="true"/>
<isSummary value="true"/>
<mapping>
<identity value="rim"/>
<map value="N/A"/>
</mapping>
</element>
<element id="Sequence.referenceSeq.chromosome">
<path value="Sequence.referenceSeq.chromosome"/>
<short value="Chromosome containing genetic finding"/>
<definition
value="Structural unit composed of a nucleic acid molecule which controls its own replication through the interaction of specific proteins at one or more origins of replication ([SO:0000340](http://www.sequenceontology.org/browser/current_svn/term/SO:0000340))."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.chromosome"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="CodeableConcept"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="chromosome-human"/>
</extension>
<strength value="example"/>
<description value="Chromosome number for human"/>
<valueSetReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/chromosome-human|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.referenceSeq.genomeBuild">
<path value="Sequence.referenceSeq.genomeBuild"/>
<short
value="The Genome Build used for reference, following GRCh build versions e.g. 'GRCh 37'"/>
<definition
value="The Genome Build used for reference, following GRCh build versions e.g. 'GRCh 37'. Version number must be included if a versioned release of a primary build was used."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.genomeBuild"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq.referenceSeqId">
<path value="Sequence.referenceSeq.referenceSeqId"/>
<short value="Reference identifier"/>
<definition
value="Reference identifier of reference sequence submitted to NCBI. It must match the type in the Sequence.type field. For example, the prefix, “NG_” identifies reference sequence for genes, “NM_” for messenger RNA transcripts, and “NP_” for amino acid sequences."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.referenceSeqId"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="CodeableConcept"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="sequenceReference"/>
</extension>
<strength value="example"/>
<description value="Reference identifier"/>
<valueSetReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/sequence-referenceSeq|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.referenceSeq.referenceSeqPointer">
<path value="Sequence.referenceSeq.referenceSeqPointer"/>
<short
value="A Pointer to another Sequence entity as reference sequence"/>
<definition
value="A Pointer to another Sequence entity as reference sequence."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.referenceSeqPointer"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq.referenceSeqString">
<path value="Sequence.referenceSeq.referenceSeqString"/>
<short value="A string to represent reference sequence"/>
<definition value="A string like "ACGT"."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.referenceSeqString"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq.strand">
<path value="Sequence.referenceSeq.strand"/>
<short value="Directionality of DNA ( +1/-1)"/>
<definition
value="Directionality of DNA sequence. Available values are "1" for the plus strand (5' to 3')/Watson/Sense/positive and "-1" for the minus strand(3' to 5')/Crick/Antisense/negative."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.strand"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq.strand.id">
<path value="Sequence.referenceSeq.strand.id"/>
<representation value="xmlAttr"/>
<short value="xml:id (or equivalent in JSON)"/>
<definition
value="unique id for the element within a resource (for internal references)"/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
</element>
<element id="Sequence.referenceSeq.strand.extension">
<path value="Sequence.referenceSeq.strand.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<short value="Extension"/>
<definition value="An Extension"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
</element>
<element id="Sequence.referenceSeq.strand.extension:strand">
<path value="Sequence.referenceSeq.strand.extension"/>
<sliceName value="strand"/>
<short value="R4: watson | crick additional types"/>
<definition
value="R4: `MolecularSequence.referenceSeq.strand` additional types (code) additional types from child elements (value)"/>
<comment
value="Element `MolecularSequence.referenceSeq.strand` is mapped to FHIR STU3 element `Sequence.referenceSeq.strand` as `SourceIsBroaderThanTarget`.
The mappings for `MolecularSequence.referenceSeq.strand` do not cover the following types: code.
The mappings for `MolecularSequence.referenceSeq.strand` do not cover the following types based on type expansion: value."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.strand|0.1.0"/>
</type>
<condition value="ele-1"/>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<constraint>
<key value="ext-1"/>
<severity value="error"/>
<human value="Must have either extensions or value[x], not both"/>
<expression value="extension.exists() != value.exists()"/>
<xpath
value="exists(f:extension)!=exists(f:*[starts-with(local-name(.), 'value')])"/>
<source value="http://hl7.org/fhir/StructureDefinition/Extension"/>
</constraint>
<isModifier value="false"/>
</element>
<element id="Sequence.referenceSeq.strand.value">
<path value="Sequence.referenceSeq.strand.value"/>
<representation value="xmlAttr"/>
<short value="Primitive value for integer"/>
<definition value="The actual value"/>
<min value="0"/>
<max value="1"/>
<base>
<path value="integer.value"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-regex">
<valueString value="-?([0]|([1-9][0-9]*))"/>
</extension>
<code>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-json-type">
<valueString value="number"/>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-xml-type">
<valueString value="xsd:int"/>
</extension>
<extension
url="http://hl7.org/fhir/StructureDefinition/structuredefinition-rdf-type">
<valueString value="xsd:int"/>
</extension>
</code>
</type>
<minValueInteger value="-2147483648"/>
<maxValueInteger value="2147483647"/>
</element>
<element id="Sequence.referenceSeq.windowStart">
<path value="Sequence.referenceSeq.windowStart"/>
<short value="Start position of the window on the reference sequence"/>
<definition
value="Start position of the window on the reference sequence. If the coordinate system is either 0-based or 1-based, then start position is inclusive."/>
<min value="1"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.windowStart"/>
<min value="1"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.referenceSeq.windowEnd">
<path value="Sequence.referenceSeq.windowEnd"/>
<short value="End position of the window on the reference sequence"/>
<definition
value="End position of the window on the reference sequence. If the coordinate system is 0-based then end is is exclusive and does not include the last position. If the coordinate system is 1-base, then end is inclusive and includes the last position."/>
<min value="1"/>
<max value="1"/>
<base>
<path value="Sequence.referenceSeq.windowEnd"/>
<min value="1"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.variant">
<path value="Sequence.variant"/>
<short value="Variant in sequence"/>
<definition
value="The definition of variant here originates from Sequence ontology ([variant_of](http://www.sequenceontology.org/browser/current_svn/term/variant_of)). This element can represent amino acid or nucleic sequence change(including insertion,deletion,SNP,etc.) It can represent some complex mutation or segment variation with the assist of CIGAR string."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Sequence.variant"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="BackboneElement"/>
</type>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<isSummary value="true"/>
</element>
<element id="Sequence.variant.id">
<path value="Sequence.variant.id"/>
<representation value="xmlAttr"/>
<short value="xml:id (or equivalent in JSON)"/>
<definition
value="unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<mapping>
<identity value="rim"/>
<map value="n/a"/>
</mapping>
</element>
<element id="Sequence.variant.extension">
<path value="Sequence.variant.extension"/>
<short value="Additional Content defined by implementations"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the element. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<mapping>
<identity value="rim"/>
<map value="n/a"/>
</mapping>
</element>
<element id="Sequence.variant.modifierExtension">
<path value="Sequence.variant.modifierExtension"/>
<short value="Extensions that cannot be ignored"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the element, and that modifies the understanding of the element that contains it. Usually modifier elements provide negation or qualification. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<alias value="modifiers"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="BackboneElement.modifierExtension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<isModifier value="true"/>
<isSummary value="true"/>
<mapping>
<identity value="rim"/>
<map value="N/A"/>
</mapping>
</element>
<element id="Sequence.variant.start">
<path value="Sequence.variant.start"/>
<short
value="Start position of the variant on the reference sequence"/>
<definition
value="Start position of the variant on the reference sequence.If the coordinate system is either 0-based or 1-based, then start position is inclusive."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.variant.start"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.variant.end">
<path value="Sequence.variant.end"/>
<short value="End position of the variant on the reference sequence"/>
<definition
value="End position of the variant on the reference sequence.If the coordinate system is 0-based then end is is exclusive and does not include the last position. If the coordinate system is 1-base, then end is inclusive and includes the last position."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.variant.end"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.variant.observedAllele">
<path value="Sequence.variant.observedAllele"/>
<short value="Allele that was observed"/>
<definition
value="An allele is one of a set of coexisting sequence variants of a gene ([SO:0001023](http://www.sequenceontology.org/browser/current_svn/term/SO:0001023)). Nucleotide(s)/amino acids from start position of sequence to stop position of sequence on the positive (+) strand of the observed sequence. When the sequence type is DNA, it should be the sequence on the positive (+) strand. This will lay in the range between variant.start and variant.end."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.variant.observedAllele"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.variant.referenceAllele">
<path value="Sequence.variant.referenceAllele"/>
<short value="Allele in the reference sequence"/>
<definition
value="An allele is one of a set of coexisting sequence variants of a gene ([SO:0001023](http://www.sequenceontology.org/browser/current_svn/term/SO:0001023)). Nucleotide(s)/amino acids from start position of sequence to stop position of sequence on the positive (+) strand of the reference sequence. When the sequence type is DNA, it should be the sequence on the positive (+) strand. This will lay in the range between variant.start and variant.end."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.variant.referenceAllele"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.variant.cigar">
<path value="Sequence.variant.cigar"/>
<short
value="Extended CIGAR string for aligning the sequence with reference bases"/>
<definition
value="Extended CIGAR string for aligning the sequence with reference bases. See detailed documentation [here](http://support.illumina.com/help/SequencingAnalysisWorkflow/Content/Vault/Informatics/Sequencing_Analysis/CASAVA/swSEQ_mCA_ExtendedCIGARFormat.htm)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.variant.cigar"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.variant.variantPointer">
<path value="Sequence.variant.variantPointer"/>
<short value="Pointer to observed variant information"/>
<definition
value="A pointer to an Observation containing variant information."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.variant.variantPointer"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Observation"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.observedSeq">
<path value="Sequence.observedSeq"/>
<short value="Sequence that was observed"/>
<definition
value="Sequence that was observed. It is the result marked by referenceSeq along with variant records on referenceSeq. This shall starts from referenceSeq.windowStart and end by referenceSeq.windowEnd."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.observedSeq"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality">
<path value="Sequence.quality"/>
<short value="An set of value as quality of sequence"/>
<definition
value="An experimental feature attribute that defines the quality of the feature in a quantitative way, such as a phred quality score ([SO:0001686](http://www.sequenceontology.org/browser/current_svn/term/SO:0001686))."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Sequence.quality"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="BackboneElement"/>
</type>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.id">
<path value="Sequence.quality.id"/>
<representation value="xmlAttr"/>
<short value="xml:id (or equivalent in JSON)"/>
<definition
value="unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<mapping>
<identity value="rim"/>
<map value="n/a"/>
</mapping>
</element>
<element id="Sequence.quality.extension">
<path value="Sequence.quality.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<short value="Extension"/>
<definition value="An Extension"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
</element>
<element id="Sequence.quality.extension:roc">
<path value="Sequence.quality.extension"/>
<sliceName value="roc"/>
<short value="R4: Receiver Operator Characteristic (ROC) Curve (new)"/>
<definition
value="R4: `MolecularSequence.quality.roc` (new:BackboneElement)"/>
<comment
value="Element `MolecularSequence.quality.roc` has a context of Sequence.quality based on following the parent source element upwards and mapping to `Sequence`.
Element `MolecularSequence.quality.roc` has no mapping targets in FHIR STU3. Typically, this is because the element has been added (is a new element)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.quality.roc|0.1.0"/>
</type>
<condition value="ele-1"/>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<constraint>
<key value="ext-1"/>
<severity value="error"/>
<human value="Must have either extensions or value[x], not both"/>
<expression value="extension.exists() != value.exists()"/>
<xpath
value="exists(f:extension)!=exists(f:*[starts-with(local-name(.), 'value')])"/>
<source value="http://hl7.org/fhir/StructureDefinition/Extension"/>
</constraint>
<isModifier value="false"/>
</element>
<element id="Sequence.quality.modifierExtension">
<path value="Sequence.quality.modifierExtension"/>
<short value="Extensions that cannot be ignored"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the element, and that modifies the understanding of the element that contains it. Usually modifier elements provide negation or qualification. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<alias value="modifiers"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="BackboneElement.modifierExtension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<isModifier value="true"/>
<isSummary value="true"/>
<mapping>
<identity value="rim"/>
<map value="N/A"/>
</mapping>
</element>
<element id="Sequence.quality.type">
<path value="Sequence.quality.type"/>
<short value="indel | snp | unknown"/>
<definition value="INDEL / SNP / Undefined variant."/>
<min value="1"/>
<max value="1"/>
<base>
<path value="Sequence.quality.type"/>
<min value="1"/>
<max value="1"/>
</base>
<type>
<code value="code"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="qualityType"/>
</extension>
<strength value="required"/>
<description value="Type for quality report"/>
<valueSetReference>🔗
<reference value="http://hl7.org/fhir/ValueSet/quality-type|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.quality.standardSequence">
<path value="Sequence.quality.standardSequence"/>
<short value="Standard sequence for comparison"/>
<definition value="Gold standard sequence used for comparing against."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.standardSequence"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="CodeableConcept"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="qualityStandardSequence"/>
</extension>
<strength value="example"/>
<description
value="Reference identifier of the sequence that used to mark the quality of tested samples."/>
<valueSetReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/sequence-quality-standardSequence|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.quality.start">
<path value="Sequence.quality.start"/>
<short value="Start position of the sequence"/>
<definition
value="Start position of the sequence. If the coordinate system is either 0-based or 1-based, then start position is inclusive."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.start"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.end">
<path value="Sequence.quality.end"/>
<short value="End position of the sequence"/>
<definition
value="End position of the sequence.If the coordinate system is 0-based then end is is exclusive and does not include the last position. If the coordinate system is 1-base, then end is inclusive and includes the last position."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.end"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.score">
<path value="Sequence.quality.score"/>
<short value="Quality score for the comparison"/>
<definition
value="The score of an experimentally derived feature such as a p-value ([SO:0001685](http://www.sequenceontology.org/browser/current_svn/term/SO:0001685))."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.score"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="Quantity"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.method">
<path value="Sequence.quality.method"/>
<short value="Method to get quality"/>
<definition value="Which method is used to get sequence quality."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.method"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="CodeableConcept"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="qualityMethod"/>
</extension>
<strength value="example"/>
<description
value="The method used to evaluate the numerical quality of the observed sequence."/>
<valueSetReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/sequence-quality-method|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.quality.truthTP">
<path value="Sequence.quality.truthTP"/>
<short value="True positives from the perspective of the truth data"/>
<definition
value="True positives, from the perspective of the truth data, i.e. the number of sites in the Truth Call Set for which there are paths through the Query Call Set that are consistent with all of the alleles at this site, and for which there is an accurate genotype call for the event."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.truthTP"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.queryTP">
<path value="Sequence.quality.queryTP"/>
<short value="True positives from the perspective of the query data"/>
<definition
value="True positives, from the perspective of the query data, i.e. the number of sites in the Query Call Set for which there are paths through the Truth Call Set that are consistent with all of the alleles at this site, and for which there is an accurate genotype call for the event."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.queryTP"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.truthFN">
<path value="Sequence.quality.truthFN"/>
<short value="False negatives"/>
<definition
value="False negatives, i.e. the number of sites in the Truth Call Set for which there is no path through the Query Call Set that is consistent with all of the alleles at this site, or sites for which there is an inaccurate genotype call for the event. Sites with correct variant but incorrect genotype are counted here."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.truthFN"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.queryFP">
<path value="Sequence.quality.queryFP"/>
<short value="False positives"/>
<definition
value="False positives, i.e. the number of sites in the Query Call Set for which there is no path through the Truth Call Set that is consistent with this site. Sites with correct variant but incorrect genotype are counted here."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.queryFP"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.gtFP">
<path value="Sequence.quality.gtFP"/>
<short
value="False positives where the non-REF alleles in the Truth and Query Call Sets match"/>
<definition
value="The number of false positives where the non-REF alleles in the Truth and Query Call Sets match (i.e. cases where the truth is 1/1 and the query is 0/1 or similar)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.gtFP"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.precision">
<path value="Sequence.quality.precision"/>
<short value="Precision of comparison"/>
<definition value="QUERY.TP / (QUERY.TP + QUERY.FP)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.precision"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.recall">
<path value="Sequence.quality.recall"/>
<short value="Recall of comparison"/>
<definition value="TRUTH.TP / (TRUTH.TP + TRUTH.FN)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.recall"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.quality.fScore">
<path value="Sequence.quality.fScore"/>
<short value="F-score"/>
<definition
value="Harmonic mean of Recall and Precision, computed as: 2 * precision * recall / (precision + recall)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.quality.fScore"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="decimal"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.readCoverage">
<path value="Sequence.readCoverage"/>
<short
value="Average number of reads representing a given nucleotide in the reconstructed sequence"/>
<definition
value="Coverage (read depth or depth) is the average number of reads representing a given nucleotide in the reconstructed sequence."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.readCoverage"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="integer"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.repository">
<path value="Sequence.repository"/>
<short
value="External repository which contains detailed report related with observedSeq in this resource"/>
<definition
value="Configurations of the external repository. The repository shall store target's observedSeq or records related with target's observedSeq."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Sequence.repository"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="BackboneElement"/>
</type>
<constraint>
<key value="ele-1"/>
<severity value="error"/>
<human value="All FHIR elements must have a @value or children"/>
<expression
value="hasValue() | (children().count() > id.count())"/>
<xpath value="@value|f:*|h:div"/>
<source value="http://hl7.org/fhir/StructureDefinition/Element"/>
</constraint>
<isSummary value="true"/>
</element>
<element id="Sequence.repository.id">
<path value="Sequence.repository.id"/>
<representation value="xmlAttr"/>
<short value="xml:id (or equivalent in JSON)"/>
<definition
value="unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Element.id"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<mapping>
<identity value="rim"/>
<map value="n/a"/>
</mapping>
</element>
<element id="Sequence.repository.extension">
<path value="Sequence.repository.extension"/>
<short value="Additional Content defined by implementations"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the element. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Element.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<mapping>
<identity value="rim"/>
<map value="n/a"/>
</mapping>
</element>
<element id="Sequence.repository.modifierExtension">
<path value="Sequence.repository.modifierExtension"/>
<short value="Extensions that cannot be ignored"/>
<definition
value="May be used to represent additional information that is not part of the basic definition of the element, and that modifies the understanding of the element that contains it. Usually modifier elements provide negation or qualification. In order to make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer is allowed to define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions."/>
<comment
value="There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone."/>
<alias value="extensions"/>
<alias value="user content"/>
<alias value="modifiers"/>
<min value="0"/>
<max value="*"/>
<base>
<path value="BackboneElement.modifierExtension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
</type>
<isModifier value="true"/>
<isSummary value="true"/>
<mapping>
<identity value="rim"/>
<map value="N/A"/>
</mapping>
</element>
<element id="Sequence.repository.type">
<path value="Sequence.repository.type"/>
<short value="directlink | openapi | login | oauth | other"/>
<definition
value="Click and see / RESTful API / Need login to see / RESTful API with authentication / Other ways to see resource."/>
<min value="1"/>
<max value="1"/>
<base>
<path value="Sequence.repository.type"/>
<min value="1"/>
<max value="1"/>
</base>
<type>
<code value="code"/>
</type>
<isSummary value="true"/>
<binding>
<extension
url="http://hl7.org/fhir/StructureDefinition/elementdefinition-bindingName">
<valueString value="repositoryType"/>
</extension>
<strength value="required"/>
<description value="Type for access of external URI"/>
<valueSetReference>🔗
<reference
value="http://hl7.org/fhir/ValueSet/repository-type|3.0.2"/>
</valueSetReference>
</binding>
</element>
<element id="Sequence.repository.url">
<path value="Sequence.repository.url"/>
<short value="URI of the repository"/>
<definition
value="URI of an external repository which contains further details about the genetics data."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.repository.url"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="uri"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.repository.name">
<path value="Sequence.repository.name"/>
<short value="Repository's name"/>
<definition
value="URI of an external repository which contains further details about the genetics data."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.repository.name"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.repository.datasetId">
<path value="Sequence.repository.datasetId"/>
<short
value="Id of the dataset that used to call for dataset in repository"/>
<definition
value="Id of the variant in this external repository. The server will understand how to use this id to call for more info about datasets in external repository."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.repository.datasetId"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.repository.variantsetId">
<path value="Sequence.repository.variantsetId"/>
<short
value="Id of the variantset that used to call for variantset in repository"/>
<definition
value="Id of the variantset in this external repository. The server will understand how to use this id to call for more info about variantsets in external repository."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.repository.variantsetId"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.repository.readsetId">
<path value="Sequence.repository.readsetId"/>
<short value="Id of the read"/>
<definition value="Id of the read in this external repository."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="Sequence.repository.readsetId"/>
<min value="0"/>
<max value="1"/>
</base>
<type>
<code value="string"/>
</type>
<isSummary value="true"/>
</element>
<element id="Sequence.pointer">
<path value="Sequence.pointer"/>
<short value="Pointer to next atomic sequence"/>
<definition
value="Pointer to next atomic sequence which at most contains one variant."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="Sequence.pointer"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Reference"/>
<targetProfile
value="http://hl7.org/fhir/StructureDefinition/Sequence"/>
</type>
<isSummary value="true"/>
</element>
</snapshot>
<differential>
<element id="Sequence">
<path value="Sequence"/>
</element>
<element id="Sequence.extension">
<path value="Sequence.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<min value="0"/>
<max value="*"/>
</element>
<element id="Sequence.extension:structureVariant">
<path value="Sequence.extension"/>
<sliceName value="structureVariant"/>
<short value="R4: Structural variant (new)"/>
<definition
value="R4: `MolecularSequence.structureVariant` (new:BackboneElement)"/>
<comment
value="Element `MolecularSequence.structureVariant` has a context of Sequence based on following the parent source element upwards and mapping to `Sequence`.
Element `MolecularSequence.structureVariant` has no mapping targets in FHIR STU3. Typically, this is because the element has been added (is a new element)."/>
<min value="0"/>
<max value="*"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.structureVariant|0.1.0"/>
</type>
</element>
<element id="Sequence.type.extension">
<path value="Sequence.type.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<min value="0"/>
<max value="*"/>
</element>
<element id="Sequence.type.extension:type">
<path value="Sequence.type.extension"/>
<sliceName value="type"/>
<short value="R4: type"/>
<definition value="R4: `MolecularSequence.type`"/>
<comment
value="Element `MolecularSequence.type` is mapped to FHIR STU3 element `Sequence.type` as `Equivalent`."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.type|0.1.0"/>
</type>
</element>
<element id="Sequence.referenceSeq.extension">
<path value="Sequence.referenceSeq.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<min value="0"/>
<max value="*"/>
</element>
<element id="Sequence.referenceSeq.extension:orientation">
<path value="Sequence.referenceSeq.extension"/>
<sliceName value="orientation"/>
<short value="R4: sense | antisense (new)"/>
<definition
value="R4: `MolecularSequence.referenceSeq.orientation` (new:code)"/>
<comment
value="Element `MolecularSequence.referenceSeq.orientation` has a context of Sequence.referenceSeq based on following the parent source element upwards and mapping to `Sequence`.
Element `MolecularSequence.referenceSeq.orientation` has no mapping targets in FHIR STU3. Typically, this is because the element has been added (is a new element)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.orientation|0.1.0"/>
</type>
</element>
<element id="Sequence.referenceSeq.strand.extension">
<path value="Sequence.referenceSeq.strand.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<min value="0"/>
<max value="*"/>
</element>
<element id="Sequence.referenceSeq.strand.extension:strand">
<path value="Sequence.referenceSeq.strand.extension"/>
<sliceName value="strand"/>
<short value="R4: watson | crick additional types"/>
<definition
value="R4: `MolecularSequence.referenceSeq.strand` additional types (code) additional types from child elements (value)"/>
<comment
value="Element `MolecularSequence.referenceSeq.strand` is mapped to FHIR STU3 element `Sequence.referenceSeq.strand` as `SourceIsBroaderThanTarget`.
The mappings for `MolecularSequence.referenceSeq.strand` do not cover the following types: code.
The mappings for `MolecularSequence.referenceSeq.strand` do not cover the following types based on type expansion: value."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.referenceSeq.strand|0.1.0"/>
</type>
</element>
<element id="Sequence.quality.extension">
<path value="Sequence.quality.extension"/>
<slicing>
<discriminator>
<type value="value"/>
<path value="url"/>
</discriminator>
<ordered value="false"/>
<rules value="open"/>
</slicing>
<min value="0"/>
<max value="*"/>
</element>
<element id="Sequence.quality.extension:roc">
<path value="Sequence.quality.extension"/>
<sliceName value="roc"/>
<short value="R4: Receiver Operator Characteristic (ROC) Curve (new)"/>
<definition
value="R4: `MolecularSequence.quality.roc` (new:BackboneElement)"/>
<comment
value="Element `MolecularSequence.quality.roc` has a context of Sequence.quality based on following the parent source element upwards and mapping to `Sequence`.
Element `MolecularSequence.quality.roc` has no mapping targets in FHIR STU3. Typically, this is because the element has been added (is a new element)."/>
<min value="0"/>
<max value="1"/>
<base>
<path value="DomainResource.extension"/>
<min value="0"/>
<max value="*"/>
</base>
<type>
<code value="Extension"/>
<profile
value="http://hl7.org/fhir/4.0/StructureDefinition/extension-MolecularSequence.quality.roc|0.1.0"/>
</type>
</element>
</differential>
</StructureDefinition>
IG © 2025+ FHIR Infrastructure. Package hl7.fhir.uv.xver-r4.r3#0.1.0 based on FHIR 3.0.2. Generated 2026-03-20
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