This page is part of the FHIR Specification (v5.0.0-snapshot3: R5 Snapshot #3, to support Connectathon 32). 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 R4
Biomedical Research and Regulation Work Group | Maturity Level: 0 | Trial Use | Security Category: Anonymous | Compartments: Not linked to any defined compartments |
Detailed Descriptions for the elements in the SubstanceNucleicAcid resource.
SubstanceNucleicAcid | |
Element Id | SubstanceNucleicAcid |
Definition | Nucleic acids are defined by three distinct elements: the base, sugar and linkage. Individual substance/moiety IDs will be created for each of these elements. The nucleotide sequence will be always entered in the 5’-3’ direction. |
Short Display | Nucleic acids are defined by three distinct elements: the base, sugar and linkage. Individual substance/moiety IDs will be created for each of these elements. The nucleotide sequence will be always entered in the 5’-3’ direction |
Cardinality | 0..* |
Type | DomainResource |
Summary | false |
SubstanceNucleicAcid.sequenceType | |
Element Id | SubstanceNucleicAcid.sequenceType |
Definition | The type of the sequence shall be specified based on a controlled vocabulary. |
Short Display | The type of the sequence shall be specified based on a controlled vocabulary |
Cardinality | 0..1 |
Type | CodeableConcept |
Summary | true |
SubstanceNucleicAcid.numberOfSubunits | |
Element Id | SubstanceNucleicAcid.numberOfSubunits |
Definition | The number of linear sequences of nucleotides linked through phosphodiester bonds shall be described. Subunits would be strands of nucleic acids that are tightly associated typically through Watson-Crick base pairing. NOTE: If not specified in the reference source, the assumption is that there is 1 subunit. |
Short Display | The number of linear sequences of nucleotides linked through phosphodiester bonds shall be described. Subunits would be strands of nucleic acids that are tightly associated typically through Watson-Crick base pairing. NOTE: If not specified in the reference source, the assumption is that there is 1 subunit |
Cardinality | 0..1 |
Type | integer |
Summary | true |
SubstanceNucleicAcid.areaOfHybridisation | |
Element Id | SubstanceNucleicAcid.areaOfHybridisation |
Definition | The area of hybridisation shall be described if applicable for double stranded RNA or DNA. The number associated with the subunit followed by the number associated to the residue shall be specified in increasing order. The underscore “” shall be used as separator as follows: “Subunitnumber Residue”. |
Short Display | The area of hybridisation shall be described if applicable for double stranded RNA or DNA. The number associated with the subunit followed by the number associated to the residue shall be specified in increasing order. The underscore “” shall be used as separator as follows: “Subunitnumber Residue” |
Cardinality | 0..1 |
Type | string |
Summary | true |
SubstanceNucleicAcid.oligoNucleotideType | |
Element Id | SubstanceNucleicAcid.oligoNucleotideType |
Definition | (TBC). |
Short Display | (TBC) |
Cardinality | 0..1 |
Type | CodeableConcept |
Summary | true |
SubstanceNucleicAcid.subunit | |
Element Id | SubstanceNucleicAcid.subunit |
Definition | Subunits are listed in order of decreasing length; sequences of the same length will be ordered by molecular weight; subunits that have identical sequences will be repeated multiple times. |
Short Display | Subunits are listed in order of decreasing length; sequences of the same length will be ordered by molecular weight; subunits that have identical sequences will be repeated multiple times |
Cardinality | 0..* |
Summary | true |
SubstanceNucleicAcid.subunit.subunit | |
Element Id | SubstanceNucleicAcid.subunit.subunit |
Definition | Index of linear sequences of nucleic acids in order of decreasing length. Sequences of the same length will be ordered by molecular weight. Subunits that have identical sequences will be repeated and have sequential subscripts. |
Short Display | Index of linear sequences of nucleic acids in order of decreasing length. Sequences of the same length will be ordered by molecular weight. Subunits that have identical sequences will be repeated and have sequential subscripts |
Cardinality | 0..1 |
Type | integer |
Summary | true |
SubstanceNucleicAcid.subunit.sequence | |
Element Id | SubstanceNucleicAcid.subunit.sequence |
Definition | Actual nucleotide sequence notation from 5' to 3' end using standard single letter codes. In addition to the base sequence, sugar and type of phosphate or non-phosphate linkage should also be captured. |
Short Display | Actual nucleotide sequence notation from 5' to 3' end using standard single letter codes. In addition to the base sequence, sugar and type of phosphate or non-phosphate linkage should also be captured |
Cardinality | 0..1 |
Type | string |
Summary | true |
SubstanceNucleicAcid.subunit.length | |
Element Id | SubstanceNucleicAcid.subunit.length |
Definition | The length of the sequence shall be captured. |
Short Display | The length of the sequence shall be captured |
Cardinality | 0..1 |
Type | integer |
Summary | true |
SubstanceNucleicAcid.subunit.sequenceAttachment | |
Element Id | SubstanceNucleicAcid.subunit.sequenceAttachment |
Definition | (TBC). |
Short Display | (TBC) |
Cardinality | 0..1 |
Type | Attachment |
Summary | true |
SubstanceNucleicAcid.subunit.fivePrime | |
Element Id | SubstanceNucleicAcid.subunit.fivePrime |
Definition | The nucleotide present at the 5’ terminal shall be specified based on a controlled vocabulary. Since the sequence is represented from the 5' to the 3' end, the 5’ prime nucleotide is the letter at the first position in the sequence. A separate representation would be redundant. |
Short Display | The nucleotide present at the 5’ terminal shall be specified based on a controlled vocabulary. Since the sequence is represented from the 5' to the 3' end, the 5’ prime nucleotide is the letter at the first position in the sequence. A separate representation would be redundant |
Cardinality | 0..1 |
Type | CodeableConcept |
Summary | true |
SubstanceNucleicAcid.subunit.threePrime | |
Element Id | SubstanceNucleicAcid.subunit.threePrime |
Definition | The nucleotide present at the 3’ terminal shall be specified based on a controlled vocabulary. Since the sequence is represented from the 5' to the 3' end, the 5’ prime nucleotide is the letter at the last position in the sequence. A separate representation would be redundant. |
Short Display | The nucleotide present at the 3’ terminal shall be specified based on a controlled vocabulary. Since the sequence is represented from the 5' to the 3' end, the 5’ prime nucleotide is the letter at the last position in the sequence. A separate representation would be redundant |
Cardinality | 0..1 |
Type | CodeableConcept |
Summary | true |
SubstanceNucleicAcid.subunit.linkage | |
Element Id | SubstanceNucleicAcid.subunit.linkage |
Definition | The linkages between sugar residues will also be captured. |
Short Display | The linkages between sugar residues will also be captured |
Cardinality | 0..* |
Summary | true |
SubstanceNucleicAcid.subunit.linkage.connectivity | |
Element Id | SubstanceNucleicAcid.subunit.linkage.connectivity |
Definition | The entity that links the sugar residues together should also be captured for nearly all naturally occurring nucleic acid the linkage is a phosphate group. For many synthetic oligonucleotides phosphorothioate linkages are often seen. Linkage connectivity is assumed to be 3’-5’. If the linkage is either 3’-3’ or 5’-5’ this should be specified. |
Short Display | The entity that links the sugar residues together should also be captured for nearly all naturally occurring nucleic acid the linkage is a phosphate group. For many synthetic oligonucleotides phosphorothioate linkages are often seen. Linkage connectivity is assumed to be 3’-5’. If the linkage is either 3’-3’ or 5’-5’ this should be specified |
Cardinality | 0..1 |
Type | string |
Summary | true |
SubstanceNucleicAcid.subunit.linkage.identifier | |
Element Id | SubstanceNucleicAcid.subunit.linkage.identifier |
Definition | Each linkage will be registered as a fragment and have an ID. |
Short Display | Each linkage will be registered as a fragment and have an ID |
Note | This is a business identifier, not a resource identifier (see discussion) |
Cardinality | 0..1 |
Type | Identifier |
Summary | true |
SubstanceNucleicAcid.subunit.linkage.name | |
Element Id | SubstanceNucleicAcid.subunit.linkage.name |
Definition | Each linkage will be registered as a fragment and have at least one name. A single name shall be assigned to each linkage. |
Short Display | Each linkage will be registered as a fragment and have at least one name. A single name shall be assigned to each linkage |
Cardinality | 0..1 |
Type | string |
Summary | true |
SubstanceNucleicAcid.subunit.linkage.residueSite | |
Element Id | SubstanceNucleicAcid.subunit.linkage.residueSite |
Definition | Residues shall be captured as described in 5.3.6.8.3. |
Short Display | Residues shall be captured as described in 5.3.6.8.3 |
Cardinality | 0..1 |
Type | string |
Summary | true |
SubstanceNucleicAcid.subunit.sugar | |
Element Id | SubstanceNucleicAcid.subunit.sugar |
Definition | 5.3.6.8.1 Sugar ID (Mandatory). |
Short Display | 5.3.6.8.1 Sugar ID (Mandatory) |
Cardinality | 0..* |
Summary | true |
SubstanceNucleicAcid.subunit.sugar.identifier | |
Element Id | SubstanceNucleicAcid.subunit.sugar.identifier |
Definition | The Substance ID of the sugar or sugar-like component that make up the nucleotide. |
Short Display | The Substance ID of the sugar or sugar-like component that make up the nucleotide |
Note | This is a business identifier, not a resource identifier (see discussion) |
Cardinality | 0..1 |
Type | Identifier |
Summary | true |
SubstanceNucleicAcid.subunit.sugar.name | |
Element Id | SubstanceNucleicAcid.subunit.sugar.name |
Definition | The name of the sugar or sugar-like component that make up the nucleotide. |
Short Display | The name of the sugar or sugar-like component that make up the nucleotide |
Cardinality | 0..1 |
Type | string |
Summary | true |
SubstanceNucleicAcid.subunit.sugar.residueSite | |
Element Id | SubstanceNucleicAcid.subunit.sugar.residueSite |
Definition | The residues that contain a given sugar will be captured. The order of given residues will be captured in the 5‘-3‘direction consistent with the base sequences listed above. |
Short Display | The residues that contain a given sugar will be captured. The order of given residues will be captured in the 5‘-3‘direction consistent with the base sequences listed above |
Cardinality | 0..1 |
Type | string |
Summary | true |