R6 Ballot (3rd Draft)
DiagnosticsThis page is part of the FHIR Specification v6.0.0-ballot3: Release 6 Ballot (3rd Draft) (see Ballot Notes). The current version is 5.0.0. For a full list of available versions, see the Directory of published versions 
| Clinical Genomics Work Group | Maturity Level: 1 | Trial Use | Security Category: N/A | Compartments: No defined compartments |
Detailed Descriptions for the elements in the MolecularSequence resource.
| MolecularSequence | |
| Element Id | MolecularSequence |
| Definition | Representation of a molecular sequence. |
| Short Display | Representation of a molecular sequence |
| Cardinality | 0..* |
| Type | DomainResource |
| Summary | false |
| MolecularSequence.identifier | |
| Element Id | MolecularSequence.identifier |
| Definition | A unique identifier for this particular sequence instance. |
| Short Display | Unique ID for this particular sequence |
| Note | This is a business identifier, not a resource identifier (see discussion) |
| Cardinality | 0..* |
| Type | Identifier |
| Requirements | Allows sequences to be distinguished and referenced. |
| Summary | true |
| MolecularSequence.type | |
| Element Id | MolecularSequence.type |
| Definition | The type of the Molecular Sequence (Amino Acid Sequence, DNA Sequence, RNA Sequence). |
| Short Display | aa | dna | rna |
| Cardinality | 0..1 |
| Terminology Binding | sequence Type (Required) |
| Type | code |
| Summary | true |
| MolecularSequence.literal | |
| Element Id | MolecularSequence.literal |
| Definition | A literal representation of a Molecular Sequence. |
| Short Display | A literal representation of a Molecular Sequence |
| Cardinality | 0..* |
| Summary | true |
| MolecularSequence.literal.sequenceValue | |
| Element Id | MolecularSequence.literal.sequenceValue |
| Definition | The primary (linear) sequence, expressed as a literal string. |
| Short Display | The primary (linear) sequence, expressed as a literal string |
| Cardinality | 1..1 |
| Type | string |
| Summary | true |
| MolecularSequence.file | |
| Element Id | MolecularSequence.file |
| Definition | Sequence that was observed as file content. Can be an actual file contents, or referenced by a URL to an external system. |
| Short Display | Embedded file or a link (URL) which contains content to represent the sequence |
| Cardinality | 0..* |
| Type | Attachment |
| Summary | true |
| MolecularSequence.relative | |
| Element Id | MolecularSequence.relative |
| Definition | A Molecular Sequence that is represented as an ordered series of edits on a specified starting sequence. |
| Short Display | A Molecular Sequence that is represented as an ordered series of edits on a specified starting sequence |
| Cardinality | 0..* |
| Summary | true |
| MolecularSequence.relative.startingSequence | |
| Element Id | MolecularSequence.relative.startingSequence |
| Definition | The Molecular Sequence that serves as the starting sequence, on which edits will be applied. |
| Short Display | The Molecular Sequence that serves as the starting sequence, on which edits will be applied |
| Cardinality | 1..1 |
| Type | Reference(MolecularSequence) |
| Summary | true |
| MolecularSequence.relative.edit | |
| Element Id | MolecularSequence.relative.edit |
| Definition | An edit (change) made to a sequence. |
| Short Display | An edit (change) made to a sequence |
| Cardinality | 0..* |
| Summary | true |
| Comments | Edits are applied sequentially. The sequence that results from one edit operation is used as the 'starting' sequence of the next edit operation. |
| MolecularSequence.relative.edit.editOrder | |
| Element Id | MolecularSequence.relative.edit.editOrder |
| Definition | The order of this edit, relative to other edits on the starting sequence. |
| Short Display | The order of this edit, relative to other edits on the starting sequence |
| Cardinality | 0..1 |
| Type | integer |
| Summary | false |
| MolecularSequence.relative.edit.coordinateSystem | |
| Element Id | MolecularSequence.relative.edit.coordinateSystem |
| Definition | The coordinate system used to define the edited intervals on the starting sequence. Coordinate systems are usually 0- or 1-based. |
| Short Display | The coordinate system used to define the edited intervals on the starting sequence. Coordinate systems are usually 0- or 1-based |
| Cardinality | 1..1 |
| Terminology Binding | LL5323-2 : |
| Type | CodeableConcept |
| Summary | true |
| MolecularSequence.relative.edit.start | |
| Element Id | MolecularSequence.relative.edit.start |
| Definition | The start coordinate of the interval that will be edited. |
| Short Display | The start coordinate of the interval that will be edited |
| Cardinality | 1..1 |
| Type | integer |
| Summary | true |
| MolecularSequence.relative.edit.end | |
| Element Id | MolecularSequence.relative.edit.end |
| Definition | The end coordinate of the interval that will be edited. |
| Short Display | The end coordinate of the interval that will be edited |
| Cardinality | 1..1 |
| Type | integer |
| Summary | true |
| MolecularSequence.relative.edit.replacementSequence | |
| Element Id | MolecularSequence.relative.edit.replacementSequence |
| Definition | The sequence that defines the replacement sequence used in the edit operation. |
| Short Display | The sequence that defines the replacement sequence used in the edit operation |
| Cardinality | 1..1 |
| Type | Reference(MolecularSequence) |
| Summary | true |
| MolecularSequence.relative.edit.replacedSequence | |
| Element Id | MolecularSequence.relative.edit.replacedSequence |
| Definition | The sequence on the 'starting' sequence for the edit operation, defined by the specified interval, that will be replaced during the edit. |
| Short Display | The sequence on the 'starting' sequence for the edit operation, defined by the specified interval, that will be replaced during the edit |
| Cardinality | 0..1 |
| Type | Reference(MolecularSequence) |
| Summary | true |
| MolecularSequence.extracted | |
| Element Id | MolecularSequence.extracted |
| Definition | A Molecular Sequence that is represented as an extracted portion of a different Molecular Sequence. |
| Short Display | A Molecular Sequence that is represented as an extracted portion of a different Molecular Sequence |
| Cardinality | 0..* |
| Summary | true |
| MolecularSequence.extracted.startingSequence | |
| Element Id | MolecularSequence.extracted.startingSequence |
| Definition | The Molecular Sequence that serves as the parent sequence, from which the intended sequence will be extracted. |
| Short Display | The Molecular Sequence that serves as the parent sequence, from which the intended sequence will be extracted |
| Cardinality | 1..1 |
| Type | Reference(MolecularSequence) |
| Summary | true |
| MolecularSequence.extracted.start | |
| Element Id | MolecularSequence.extracted.start |
| Definition | The start coordinate (on the parent sequence) of the interval that defines the subsequence to be extracted. |
| Short Display | The start coordinate (on the parent sequence) of the interval that defines the subsequence to be extracted |
| Cardinality | 1..1 |
| Type | integer |
| Summary | true |
| MolecularSequence.extracted.end | |
| Element Id | MolecularSequence.extracted.end |
| Definition | The end coordinate (on the parent sequence) of the interval that defines the subsequence to be extracted. |
| Short Display | The end coordinate (on the parent sequence) of the interval that defines the subsequence to be extracted |
| Cardinality | 1..1 |
| Type | integer |
| Summary | true |
| MolecularSequence.extracted.coordinateSystem | |
| Element Id | MolecularSequence.extracted.coordinateSystem |
| Definition | The coordinate system used to define the interval that defines the subsequence to be extracted. Coordinate systems are usually 0- or 1-based. |
| Short Display | The coordinate system used to define the interval that defines the subsequence to be extracted. Coordinate systems are usually 0- or 1-based |
| Cardinality | 1..1 |
| Type | CodeableConcept |
| Summary | true |
| MolecularSequence.extracted.reverseComplement | |
| Element Id | MolecularSequence.extracted.reverseComplement |
| Definition | A flag that indicates whether the extracted sequence should be reverse complemented. |
| Short Display | A flag that indicates whether the extracted sequence should be reverse complemented |
| Cardinality | 0..1 |
| Type | boolean |
| Summary | true |
| Comments | This attribute might be needed in all sequence representation classes, so that any sequence representation could be reverseComplemented. |
| MolecularSequence.repeated | |
| Element Id | MolecularSequence.repeated |
| Definition | A Molecular Sequence that is represented as a repeated sequence motif. |
| Short Display | A Molecular Sequence that is represented as a repeated sequence motif |
| Cardinality | 0..* |
| Summary | true |
| Comments | This class represents motifs that occur in tandem (immediately adjacent to each other) and without edits (each copy of the motif is identical). |
| MolecularSequence.repeated.sequenceMotif | |
| Element Id | MolecularSequence.repeated.sequenceMotif |
| Definition | The sequence that defines the repeated motif. |
| Short Display | The sequence that defines the repeated motif |
| Cardinality | 1..1 |
| Type | Reference(MolecularSequence) |
| Summary | true |
| MolecularSequence.repeated.copyCount | |
| Element Id | MolecularSequence.repeated.copyCount |
| Definition | The number of repeats (copies) of the sequence motif. |
| Short Display | The number of repeats (copies) of the sequence motif |
| Cardinality | 1..1 |
| Type | integer |
| Summary | true |
| MolecularSequence.concatenated | |
| Element Id | MolecularSequence.concatenated |
| Definition | A Molecular Sequence that is represented as an ordered concatenation of two or more Molecular Sequences. |
| Short Display | A Molecular Sequence that is represented as an ordered concatenation of two or more Molecular Sequences |
| Cardinality | 0..1 |
| Summary | true |
| MolecularSequence.concatenated.sequenceElement | |
| Element Id | MolecularSequence.concatenated.sequenceElement |
| Definition | One element of a concatenated Molecular Sequence. |
| Short Display | One element of a concatenated Molecular Sequence |
| Cardinality | 1..* |
| Summary | true |
| Comments | At least two sequenceElement elements are required to represent a concatenated sequence. |
| MolecularSequence.concatenated.sequenceElement.sequence | |
| Element Id | MolecularSequence.concatenated.sequenceElement.sequence |
| Definition | The Molecular Sequence corresponding to this element. |
| Short Display | The Molecular Sequence corresponding to this element |
| Cardinality | 1..1 |
| Type | Reference(MolecularSequence) |
| Summary | true |
| MolecularSequence.concatenated.sequenceElement.ordinalIndex | |
| Element Id | MolecularSequence.concatenated.sequenceElement.ordinalIndex |
| Definition | The ordinal position of this sequence element within the concatenated Molecular Sequence. |
| Short Display | The ordinal position of this sequence element within the concatenated Molecular Sequence |
| Cardinality | 1..1 |
| Type | integer |
| Summary | true |
| Comments | 0 or 1 based indices are possible, could potentially skip numbers in the sequence, suggest implementers sort numerically prior to concatenating |
FHIR ®© HL7.org 2011+. FHIR R6 hl7.fhir.core#6.0.0-ballot3 generated on Tue, Apr 1, 2025 12:25+1100.
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