This page is part of the FHIR Specification (v5.0.0-ballot: FHIR R5 Ballot Preview). The current version which supercedes this version is 5.0.0. For a full list of available versions, see the Directory of published versions
Clinical Genomics Work Group | Maturity Level: N/A | Standards Status: Informative | Compartments: Patient |
Raw XML (canonical form + also see XML Format Specification)
MolecularSequence example for long fusion RNA molecule of FGFR and MET (id = "seq-ordinal")
<?xml version="1.0" encoding="UTF-8"?> <MolecularSequence xmlns="http://hl7.org/fhir"> <id value="seq-ordinal"/> <text> <status value="generated"/> <div xmlns="http://www.w3.org/1999/xhtml"><p> <b> Generated Narrative: MolecularSequence</b> <a name="seq-ordinal"> </a> </p> <div style="display: inline-block; background-color: #d9e0e7; padding: 6px; margin: 4px; border: 1px solid #8da1b4; border-radius: 5px; line-height: 60%"><p style="margin-bottom: 0px">Resource MolecularSequence "seq-ordinal" </p> </div> <p> <b> type</b> : rna</p> <blockquote> <p> <b> relative</b> </p> <p> <b> coordinateSystem</b> : 1-based character counting <span style="background: LightGoldenRodYellow; margin: 4px; border: 1px solid khaki"> (<a href="https://loinc.org/">LOINC</a> #LA30102-0)</span> </p> <p> <b> ordinalPosition</b> : 1</p> <p> <b> sequenceRange</b> : 1-2194</p> <h3> StartingSequences</h3> <table class="grid"><tr> <td> -</td> <td> <b> Sequence[x]</b> </td> <td> <b> WindowStart</b> </td> <td> <b> WindowEnd</b> </td> </tr> <tr> <td> *</td> <td> NM_000141.5 <span style="background: LightGoldenRodYellow; margin: 4px; border: 1px solid khaki"> (#NM_000141.5)</span> </td> <td> 1</td> <td> 2194</td> </tr> </table> </blockquote> <blockquote> <p> <b> relative</b> </p> <p> <b> coordinateSystem</b> : 1-based character counting <span style="background: LightGoldenRodYellow; margin: 4px; border: 1px solid khaki"> (<a href="https://loinc.org/">LOINC</a> #LA30102-0)</span> </p> <p> <b> ordinalPosition</b> : 2</p> <p> <b> sequenceRange</b> : 2194-4899</p> <h3> StartingSequences</h3> <table class="grid"><tr> <td> -</td> <td> <b> Sequence[x]</b> </td> <td> <b> WindowStart</b> </td> <td> <b> WindowEnd</b> </td> </tr> <tr> <td> *</td> <td> NM_000245.4 <span style="background: LightGoldenRodYellow; margin: 4px; border: 1px solid khaki"> (#NM_000245.4)</span> </td> <td> 1923</td> <td> 6822</td> </tr> </table> </blockquote> </div> </text> <type value="rna"/> <relative> <coordinateSystem> <coding> <system value="http://loinc.org"/> <code value="LA30102-0"/> <display value="1-based character counting"/> </coding> </coordinateSystem> <ordinalPosition value="1"/> <sequenceRange> <low> <value value="1"/> </low> <high> <value value="2194"/> </high> </sequenceRange> <startingSequence> <sequenceCodeableConcept> <coding> <system value="http://www.ncbi.nlm.nih.gov/nuccore/"/> <code value="NM_000141.5"/> </coding> </sequenceCodeableConcept> <windowStart value="1"/> <windowEnd value="2194"/> </startingSequence> <!-- specific edits would be here --> </relative> <relative> <coordinateSystem> <coding> <system value="http://loinc.org"/> <code value="LA30102-0"/> <display value="1-based character counting"/> </coding> </coordinateSystem> <ordinalPosition value="2"/> <sequenceRange> <low> <value value="2194"/> </low> <high> <value value="4899"/> </high> </sequenceRange> <startingSequence> <sequenceCodeableConcept> <coding> <system value="http://www.ncbi.nlm.nih.gov/nuccore/"/> <code value="NM_000245.4"/> </coding> </sequenceCodeableConcept> <windowStart value="1923"/> <windowEnd value="6822"/> </startingSequence> <!-- specific edits would be here --> </relative> </MolecularSequence>
Usage note: every effort has been made to ensure that the examples are correct and useful, but they are not a normative part of the specification.