MolecularSequence
Raw data describing a biological sequence.
Structure
Search Parameters
_haste-health-author (reference)
The author of the resource
Resource.meta.extension.where(url='https://haste.health/author').value_type (token)
Derived from the R4B Definition
$this.type().name_text (string)
Search on the narrative of the resource
_content (string)
Search on the entire content of the resource
_id (token)
Logical id of this artifact
Resource.id_lastUpdated (date)
When the resource version last changed
Resource.meta.lastUpdated_profile (uri)
Profiles this resource claims to conform to
Resource.meta.profile_query (token)
A custom search profile that describes a specific defined query operation
_security (token)
Security Labels applied to this resource
Resource.meta.security_source (uri)
Identifies where the resource comes from
Resource.meta.source_tag (token)
Tags applied to this resource
Resource.meta.tagchromosome (token)
Chromosome number of the reference sequence
MolecularSequence.referenceSeq.chromosomeidentifier (token)
The unique identity for a particular sequence
MolecularSequence.identifierpatient (reference)
The subject that the observation is about
MolecularSequence.patientreferenceseqid (token)
Reference Sequence of the sequence
MolecularSequence.referenceSeq.referenceSeqIdtype (token)
Amino Acid Sequence/ DNA Sequence / RNA Sequence
MolecularSequence.typevariant-end (number)
End position %280-based exclusive, which menas the acid at this position will not be included, 1-based inclusive, which means the acid at this position will be included%29 of the variant.
MolecularSequence.variant.endvariant-start (number)
Start position %280-based inclusive, 1-based inclusive, that means the nucleic acid or amino acid at this position will be included%29 of the variant.
MolecularSequence.variant.startwindow-end (number)
End position %280-based exclusive, which menas the acid at this position will not be included, 1-based inclusive, which means the acid at this position will be included%29 of the reference sequence.
MolecularSequence.referenceSeq.windowEndwindow-start (number)
Start position %280-based inclusive, 1-based inclusive, that means the nucleic acid or amino acid at this position will be included%29 of the reference sequence.
MolecularSequence.referenceSeq.windowStartchromosome-variant-coordinate (composite)
Search parameter by chromosome and variant coordinate. This will refer to part of a locus or part of a gene where search region will be represented in 1-based system. Since the coordinateSystem can either be 0-based or 1-based, this search query will include the result of both coordinateSystem that contains the equivalent segment of the gene or whole genome sequence. For example, a search for sequence can be represented as `chromosome-variant-coordinate=1$lt345$gt123`, this means it will search for the MolecularSequence resource with variants on chromosome 1 and with position >123 and <345, where in 1-based system resource, all strings within region 1:124-344 will be revealed, while in 0-based system resource, all strings within region 1:123-344 will be revealed. You may want to check detail about 0-based v.s. 1-based above.
MolecularSequence.variantchromosome-window-coordinate (composite)
Search parameter by chromosome and window. This will refer to part of a locus or part of a gene where search region will be represented in 1-based system. Since the coordinateSystem can either be 0-based or 1-based, this search query will include the result of both coordinateSystem that contains the equivalent segment of the gene or whole genome sequence. For example, a search for sequence can be represented as `chromosome-window-coordinate=1$lt345$gt123`, this means it will search for the MolecularSequence resource with a window on chromosome 1 and with position >123 and <345, where in 1-based system resource, all strings within region 1:124-344 will be revealed, while in 0-based system resource, all strings within region 1:123-344 will be revealed. You may want to check detail about 0-based v.s. 1-based above.
MolecularSequence.referenceSeqreferenceseqid-variant-coordinate (composite)
Search parameter by reference sequence and variant coordinate. This will refer to part of a locus or part of a gene where search region will be represented in 1-based system. Since the coordinateSystem can either be 0-based or 1-based, this search query will include the result of both coordinateSystem that contains the equivalent segment of the gene or whole genome sequence. For example, a search for sequence can be represented as `referenceSeqId-variant-coordinate=NC_000001.11$lt345$gt123`, this means it will search for the MolecularSequence resource with variants on NC_000001.11 and with position >123 and <345, where in 1-based system resource, all strings within region NC_000001.11:124-344 will be revealed, while in 0-based system resource, all strings within region NC_000001.11:123-344 will be revealed. You may want to check detail about 0-based v.s. 1-based above.
MolecularSequence.variantreferenceseqid-window-coordinate (composite)
Search parameter by reference sequence and window. This will refer to part of a locus or part of a gene where search region will be represented in 1-based system. Since the coordinateSystem can either be 0-based or 1-based, this search query will include the result of both coordinateSystem that contains the equivalent segment of the gene or whole genome sequence. For example, a search for sequence can be represented as `referenceSeqId-window-coordinate=NC_000001.11$lt345$gt123`, this means it will search for the MolecularSequence resource with a window on NC_000001.11 and with position >123 and <345, where in 1-based system resource, all strings within region NC_000001.11:124-344 will be revealed, while in 0-based system resource, all strings within region NC_000001.11:123-344 will be revealed. You may want to check detail about 0-based v.s. 1-based above.
MolecularSequence.referenceSeq