MolecularSequence

Trial Use 1 Clinical — Diagnostics

Raw data describing a biological sequence.

Endpoints

alphahttps://api.dev.ovok.com/fhir/R4/MolecularSequence

Interaction	Method	Path
Read	GET	/fhir/R4/MolecularSequence/[id]
Vread	GET	/fhir/R4/MolecularSequence/[id]/_history/[vid]
Update	PUT	/fhir/R4/MolecularSequence/[id]
Patch	PATCH	/fhir/R4/MolecularSequence/[id]
Delete	DELETE	/fhir/R4/MolecularSequence/[id]
Create	POST	/fhir/R4/MolecularSequence
Search	GET	/fhir/R4/MolecularSequence
History	GET	/fhir/R4/MolecularSequence/[id]/_history

Top-level elements

Element	Type(s)	Cardinality	Description
identifier	Identifier	0..*	Unique ID for this particular sequence. This is a FHIR-defined id
type	code	0..1	aa | dna | rna
coordinateSystem	integer	1..1	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)
patient	Reference	0..1	Who and/or what this is about
specimen	Reference	0..1	Specimen used for sequencing
device	Reference	0..1	The method for sequencing
performer	Reference	0..1	Who should be responsible for test result
quantity	Quantity	0..1	The number of copies of the sequence of interest. (RNASeq)
referenceSeq	BackboneElement	0..1	A sequence used as reference
variant	BackboneElement	0..*	Variant in sequence
observedSeq	string	0..1	Sequence that was observed
quality	BackboneElement	0..*	An set of value as quality of sequence
readCoverage	integer	0..1	Average number of reads representing a given nucleotide in the reconstructed sequence
repository	BackboneElement	0..*	External repository which contains detailed report related with observedSeq in this resource
pointer	Reference	0..*	Pointer to next atomic sequence
structureVariant	BackboneElement	0..*	Structural variant

Resource-specific search parameters

Parameter	Type	Description
_compartment	string
_count	string	https://www.hl7.org/fhir/search.html#_count
_elements	string	https://www.hl7.org/fhir/search.html#_elements
_id	string
_lastUpdated	string
_profile	string
_security	string
_sort	string	https://www.hl7.org/fhir/search.html#_sort
_source	string
_summary	string	https://www.hl7.org/fhir/search.html#_summary
_tag	string
_total	string	https://www.hl7.org/fhir/search.html#_total
chromosome	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-chromosome
chromosome-variant-coordinate	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-chromosome-variant-coordinate
chromosome-window-coordinate	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-chromosome-window-coordinate
identifier	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-identifier
patient	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-patient
referenceseqid	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-referenceseqid
referenceseqid-variant-coordinate	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-referenceseqid-variant-coordinate
referenceseqid-window-coordinate	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-referenceseqid-window-coordinate
type	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-type
variant-end	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-variant-end
variant-start	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-variant-start
window-end	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-window-end
window-start	string	http://hl7.org/fhir/SearchParameter/MolecularSequence-window-start

Reference

• Official FHIR R4 spec: MolecularSequence
• Maturity: Trial Use 1 (FMM 1).