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 . Page versions: R5 R4B R4 R3
Clinical Genomics Work Group | Maturity Level: N/A | Standards Status: Informative | Compartments: Patient |
Raw XML (canonical form + also see XML Format Specification)
Example of a record with 0-based coordinatesystem (id = "coord-0-base")
<?xml version="1.0" encoding="UTF-8"?> <MolecularSequence xmlns="http://hl7.org/fhir"> <id value="coord-0-base"/> <text> <status value="generated"/> <div xmlns="http://www.w3.org/1999/xhtml"><p> <b> Generated Narrative: MolecularSequence</b> <a name="coord-0-base"> </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 "coord-0-base" </p> </div> <p> <b> type</b> : dna</p> <blockquote> <p> <b> relative</b> </p> <p> <b> coordinateSystem</b> : 0-based character counting <span style="background: LightGoldenRodYellow; margin: 4px; border: 1px solid khaki"> (<a href="https://loinc.org/">LOINC</a> #LA30101-2)</span> </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> <td> <b> Strand</b> </td> </tr> <tr> <td> *</td> <td> ACGTAGTC</td> <td> 0</td> <td> 8</td> <td> watson</td> </tr> </table> <blockquote> <p> <b> edit</b> </p> <p> <b> start</b> : 2</p> <p> <b> end</b> : 2</p> <p> <b> replacementSequence</b> : ATG</p> <p> <b> replacedSequence</b> : -</p> </blockquote> <blockquote> <p> <b> edit</b> </p> <p> <b> start</b> : 4</p> <p> <b> end</b> : 5</p> <p> <b> replacementSequence</b> : T</p> <p> <b> replacedSequence</b> : A</p> </blockquote> <blockquote> <p> <b> edit</b> </p> <p> <b> start</b> : 6</p> <p> <b> end</b> : 7</p> <p> <b> replacementSequence</b> : -</p> <p> <b> replacedSequence</b> : T</p> </blockquote> </blockquote> </div> </text> <type value="dna"/> <relative> <coordinateSystem> <coding> <system value="http://loinc.org"/> <code value="LA30101-2"/> <display value="0-based character counting"/> </coding> </coordinateSystem> <startingSequence> <sequenceString value="ACGTAGTC"/> <windowStart value="0"/> <windowEnd value="8"/> <strand value="watson"/> </startingSequence> <edit> <start value="2"/> <end value="2"/> <replacementSequence value="ATG"/> <replacedSequence value="-"/> </edit> <edit> <start value="4"/> <end value="5"/> <replacementSequence value="T"/> <replacedSequence value="A"/> </edit> <edit> <start value="6"/> <end value="7"/> <replacementSequence value="-"/> <replacedSequence value="T"/> </edit> </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.