WHO SMART Guideline: Surveillance and Outbreak Toolkit
0.2.1 - CI Build International flag

WHO SMART Guideline: Surveillance and Outbreak Toolkit, published by WHO. This is not an authorized publication; it is the continuous build for version 0.2.1. This version is based on the current content of https://github.com/WorldHealthOrganization/smart-ot and changes regularly. See the Directory of published versions

Logical Model: SOTT1Laboratory - Detailed Descriptions

Draft as of 2023-11-07

Definitions for the SOTT1Laboratory logical model.

Guidance on how to interpret the contents of this table can be found here

0. SOTT1Laboratory
ShortSurveillance & Outbreak Toolkit T1 - Laboratory
Logical ModelInstances of this logical model are not marked to be the target of a Reference
2. SOTT1Laboratory.laboratoryId
Definition

Laboratory identification assigned to the case.

ShortLaboratory ID:
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
4. SOTT1Laboratory.labName
Definition

Name of testing laboratory.

ShortName of testing laboratory:
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
6. SOTT1Laboratory.labLocation
Definition

Location of testing laboratory.

ShortLocation of testing laboratory
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
8. SOTT1Laboratory.antibioticReceived
Definition

Did the patient received antibiotic prior to specimen collection?

ShortDid the patient received antibiotic prior to specimen collection?
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
10. SOTT1Laboratory.labTests
Definition

Details of tests performed

ShortDetails of tests performed
Control0..*
TypeBackboneElement
12. SOTT1Laboratory.labTests.sampleId
Definition

First Sample ID

ShortSample ID
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
14. SOTT1Laboratory.labTests.sampleType
Definition

Type of specimen (blood, stool, CSF, skin smear…..)

ShortType of specimen (blood, stool, CSF, skin smear…..)
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
16. SOTT1Laboratory.labTests.collectionDate
Definition

Collection date

ShortCollection date
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
18. SOTT1Laboratory.labTests.testPerformedDate
Definition

Date of test performed

ShortDate of test performed
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
20. SOTT1Laboratory.labTests.testPerformed
Definition

Test performed

ShortTest performed
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
22. SOTT1Laboratory.labTests.result
Definition

Result

ShortResult
Control0..1
BindingThe codes SHALL be taken from Results
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
24. SOTT1Laboratory.proteinuria
Definition

Record laboratory test results: Proteinuria

ShortProteinuria
Control0..1
BindingThe codes SHALL be taken from Yes No Unknown
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
26. SOTT1Laboratory.hematuria
Definition

Record laboratory test results: Hematuria

ShortHematuria
Control0..1
BindingThe codes SHALL be taken from Yes No Unknown
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
28. SOTT1Laboratory.haemoglobin
Definition

Record laboratory test results: Haemoglobin (g/l)

ShortHaemoglobin (g/l)
Control0..1
TypeQuantity
30. SOTT1Laboratory.WBC
Definition

Record laboratory test results: WBC count

ShortWBC count
Control0..1
TypeQuantity
32. SOTT1Laboratory.platelet
Definition

Record laboratory test results: Platelets

ShortPlatelets
Control0..1
TypeQuantity
34. SOTT1Laboratory.CRP
Definition

Record laboratory test results: CRP:

ShortCRP:
Control0..1
TypeQuantity
36. SOTT1Laboratory.potassium
Definition

Record laboratory test results: Potassium

ShortPotassium
Control0..1
TypeQuantity
38. SOTT1Laboratory.ALT
Definition

Record laboratory test results: ALT/SGPT

ShortALT/SGPT
Control0..1
TypeQuantity
40. SOTT1Laboratory.AST
Definition

Record laboratory test results: AST/SGOT

ShortAST/SGOT
Control0..1
TypeQuantity
42. SOTT1Laboratory.lactate
Definition

Record laboratory test results: Lactate

ShortLactate
Control0..1
TypeQuantity
44. SOTT1Laboratory.totalBilirubin
Definition

Record laboratory test results: Total bilirubin

ShortTotal bilirubin
Control0..1
TypeQuantity
46. SOTT1Laboratory.creatinine
Definition

Record laboratory test results: Creatinine

ShortCreatinine
Control0..1
TypeQuantity
48. SOTT1Laboratory.urea
Definition

Record laboratory test results: Urea

ShortUrea
Control0..1
TypeQuantity
50. SOTT1Laboratory.kinase
Definition

Record laboratory test results: Creatine kinase

ShortCreatine kinase
Control0..1
TypeQuantity
52. SOTT1Laboratory.otherBloodTest
Definition

Describe additional blood tests and give the results

ShortOther blood test:
Control0..1
TypeQuantity
54. SOTT1Laboratory.bloodGas
Definition

Record laboratory test results: Blood gasses analysis

ShortBlood gasses analysis
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
56. SOTT1Laboratory.arterialBloodPH
Definition

Record laboratory test results: Arterial blood PH

ShortArterial blood PH
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
58. SOTT1Laboratory.bicarbonates
Definition

Record laboratory test results: Bicarbonates

ShortBicarbonates
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
60. SOTT1Laboratory.PO2
Definition

Record laboratory test results: Partial pressure of oxygen

ShortPartial pressure of oxygen
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
62. SOTT1Laboratory.PCO2
Definition

Record laboratory test results: Partial pressure of carbon dioxide

ShortPartial pressure of carbon dioxide
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
64. SOTT1Laboratory.O2SAT
Definition

Record laboratory test results: Oxygen saturation

ShortOxygen saturation
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
66. SOTT1Laboratory.otherTestsPerformed
Definition

Other tests performed and results (even negative results)

ShortOther tests performed and results (even negative results)
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
68. SOTT1Laboratory.labConclusion
Definition

Evaluate the laboratory test results and draw a conclusion from these results

ShortLaboratory conclusion
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
70. SOTT1Laboratory.environmentSampleTaken
Definition

Where any environmental samples taken and submitted to a laboratory

ShortEnvironmental samples taken
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
72. SOTT1Laboratory.environmentSampleDetails
Definition

Details of environment sample

ShortDetails of environment sample
Control0..1
TypeBackboneElement
74. SOTT1Laboratory.environmentSampleDetails.environmentSample
Definition

Describe the environmental samples (soil, water, air, etc)

ShortProducts
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
76. SOTT1Laboratory.environmentSampleDetails.collectionDate
Definition

When where these environmental samples taken

ShortDate of collection
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
78. SOTT1Laboratory.animalSampleTaken
Definition

Where any animal samples taken and submitted to the laboratory (blood, oropharyngeal swabs, tissue, brain, feaces, etc)

ShortAnimal samples taken
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
80. SOTT1Laboratory.animalSampleDetails
Definition

Details of animal sample

ShortDetails of animal sample
Control0..1
TypeBackboneElement
82. SOTT1Laboratory.animalSampleDetails.animalSample
Definition

What kind of animal samples were taken (blood, oropharyngeal swabs, tissue, brain, feaces, etc)

ShortProducts
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
84. SOTT1Laboratory.animalSampleDetails.collectionDate
Definition

When were animal samples taken?

ShortDate of collection
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension

Guidance on how to interpret the contents of this table can be found here

0. SOTT1Laboratory
Definition

Base definition for all elements that are defined inside a resource - but not those in a data type.

ShortSurveillance & Outbreak Toolkit T1 - LaboratoryBase for elements defined inside a resource
Control0..*
This element is affected by the following invariants: ele-1
Is Modifierfalse
Logical ModelInstances of this logical model are not marked to be the target of a Reference
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
2. SOTT1Laboratory.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
4. SOTT1Laboratory.laboratoryId
Definition

Laboratory identification assigned to the case.

ShortLaboratory ID:
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
6. SOTT1Laboratory.labName
Definition

Name of testing laboratory.

ShortName of testing laboratory:
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
8. SOTT1Laboratory.labLocation
Definition

Location of testing laboratory.

ShortLocation of testing laboratory
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
10. SOTT1Laboratory.antibioticReceived
Definition

Did the patient received antibiotic prior to specimen collection?

ShortDid the patient received antibiotic prior to specimen collection?
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
12. SOTT1Laboratory.labTests
Definition

Details of tests performed

ShortDetails of tests performed
Control0..*
TypeBackboneElement
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
14. SOTT1Laboratory.labTests.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
16. SOTT1Laboratory.labTests.sampleId
Definition

First Sample ID

ShortSample ID
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
18. SOTT1Laboratory.labTests.sampleType
Definition

Type of specimen (blood, stool, CSF, skin smear…..)

ShortType of specimen (blood, stool, CSF, skin smear…..)
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
20. SOTT1Laboratory.labTests.collectionDate
Definition

Collection date

ShortCollection date
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
22. SOTT1Laboratory.labTests.testPerformedDate
Definition

Date of test performed

ShortDate of test performed
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
24. SOTT1Laboratory.labTests.testPerformed
Definition

Test performed

ShortTest performed
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
26. SOTT1Laboratory.labTests.result
Definition

Result

ShortResult
Control0..1
BindingThe codes SHALL be taken from Results
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
28. SOTT1Laboratory.proteinuria
Definition

Record laboratory test results: Proteinuria

ShortProteinuria
Control0..1
BindingThe codes SHALL be taken from Yes No Unknown
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
30. SOTT1Laboratory.hematuria
Definition

Record laboratory test results: Hematuria

ShortHematuria
Control0..1
BindingThe codes SHALL be taken from Yes No Unknown
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
32. SOTT1Laboratory.haemoglobin
Definition

Record laboratory test results: Haemoglobin (g/l)

ShortHaemoglobin (g/l)
Control0..1
TypeQuantity
34. SOTT1Laboratory.WBC
Definition

Record laboratory test results: WBC count

ShortWBC count
Control0..1
TypeQuantity
36. SOTT1Laboratory.platelet
Definition

Record laboratory test results: Platelets

ShortPlatelets
Control0..1
TypeQuantity
38. SOTT1Laboratory.CRP
Definition

Record laboratory test results: CRP:

ShortCRP:
Control0..1
TypeQuantity
40. SOTT1Laboratory.potassium
Definition

Record laboratory test results: Potassium

ShortPotassium
Control0..1
TypeQuantity
42. SOTT1Laboratory.ALT
Definition

Record laboratory test results: ALT/SGPT

ShortALT/SGPT
Control0..1
TypeQuantity
44. SOTT1Laboratory.AST
Definition

Record laboratory test results: AST/SGOT

ShortAST/SGOT
Control0..1
TypeQuantity
46. SOTT1Laboratory.lactate
Definition

Record laboratory test results: Lactate

ShortLactate
Control0..1
TypeQuantity
48. SOTT1Laboratory.totalBilirubin
Definition

Record laboratory test results: Total bilirubin

ShortTotal bilirubin
Control0..1
TypeQuantity
50. SOTT1Laboratory.creatinine
Definition

Record laboratory test results: Creatinine

ShortCreatinine
Control0..1
TypeQuantity
52. SOTT1Laboratory.urea
Definition

Record laboratory test results: Urea

ShortUrea
Control0..1
TypeQuantity
54. SOTT1Laboratory.kinase
Definition

Record laboratory test results: Creatine kinase

ShortCreatine kinase
Control0..1
TypeQuantity
56. SOTT1Laboratory.otherBloodTest
Definition

Describe additional blood tests and give the results

ShortOther blood test:
Control0..1
TypeQuantity
58. SOTT1Laboratory.bloodGas
Definition

Record laboratory test results: Blood gasses analysis

ShortBlood gasses analysis
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
60. SOTT1Laboratory.arterialBloodPH
Definition

Record laboratory test results: Arterial blood PH

ShortArterial blood PH
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
62. SOTT1Laboratory.bicarbonates
Definition

Record laboratory test results: Bicarbonates

ShortBicarbonates
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
64. SOTT1Laboratory.PO2
Definition

Record laboratory test results: Partial pressure of oxygen

ShortPartial pressure of oxygen
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
66. SOTT1Laboratory.PCO2
Definition

Record laboratory test results: Partial pressure of carbon dioxide

ShortPartial pressure of carbon dioxide
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
68. SOTT1Laboratory.O2SAT
Definition

Record laboratory test results: Oxygen saturation

ShortOxygen saturation
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
70. SOTT1Laboratory.otherTestsPerformed
Definition

Other tests performed and results (even negative results)

ShortOther tests performed and results (even negative results)
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
72. SOTT1Laboratory.labConclusion
Definition

Evaluate the laboratory test results and draw a conclusion from these results

ShortLaboratory conclusion
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
74. SOTT1Laboratory.environmentSampleTaken
Definition

Where any environmental samples taken and submitted to a laboratory

ShortEnvironmental samples taken
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
76. SOTT1Laboratory.environmentSampleDetails
Definition

Details of environment sample

ShortDetails of environment sample
Control0..1
TypeBackboneElement
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
78. SOTT1Laboratory.environmentSampleDetails.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
80. SOTT1Laboratory.environmentSampleDetails.environmentSample
Definition

Describe the environmental samples (soil, water, air, etc)

ShortProducts
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
82. SOTT1Laboratory.environmentSampleDetails.collectionDate
Definition

When where these environmental samples taken

ShortDate of collection
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
84. SOTT1Laboratory.animalSampleTaken
Definition

Where any animal samples taken and submitted to the laboratory (blood, oropharyngeal swabs, tissue, brain, feaces, etc)

ShortAnimal samples taken
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
86. SOTT1Laboratory.animalSampleDetails
Definition

Details of animal sample

ShortDetails of animal sample
Control0..1
TypeBackboneElement
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
88. SOTT1Laboratory.animalSampleDetails.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
90. SOTT1Laboratory.animalSampleDetails.animalSample
Definition

What kind of animal samples were taken (blood, oropharyngeal swabs, tissue, brain, feaces, etc)

ShortProducts
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
92. SOTT1Laboratory.animalSampleDetails.collectionDate
Definition

When were animal samples taken?

ShortDate of collection
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension

Guidance on how to interpret the contents of this table can be found here

0. SOTT1Laboratory
Definition

Base definition for all elements that are defined inside a resource - but not those in a data type.

ShortSurveillance & Outbreak Toolkit T1 - Laboratory
Control0..*
This element is affected by the following invariants: ele-1
Is Modifierfalse
Logical ModelInstances of this logical model are not marked to be the target of a Reference
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
2. SOTT1Laboratory.id
Definition

Unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces.

ShortUnique id for inter-element referencing
Control0..1
Typestring
Is Modifierfalse
XML FormatIn the XML format, this property is represented as an attribute.
Summaryfalse
4. SOTT1Laboratory.extension
Definition

May be used to represent additional information that is not part of the basic definition of the element. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension.

ShortAdditional content defined by implementations
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifierfalse
Summaryfalse
Alternate Namesextensions, user content
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
SlicingThis element introduces a set of slices on SOTT1Laboratory.extension. The slices are unordered and Open, and can be differentiated using the following discriminators: , and can be differentiated using the following discriminators:
  • value @ url
6. SOTT1Laboratory.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
8. SOTT1Laboratory.laboratoryId
Definition

Laboratory identification assigned to the case.

ShortLaboratory ID:
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
10. SOTT1Laboratory.labName
Definition

Name of testing laboratory.

ShortName of testing laboratory:
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
12. SOTT1Laboratory.labLocation
Definition

Location of testing laboratory.

ShortLocation of testing laboratory
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
14. SOTT1Laboratory.antibioticReceived
Definition

Did the patient received antibiotic prior to specimen collection?

ShortDid the patient received antibiotic prior to specimen collection?
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
16. SOTT1Laboratory.labTests
Definition

Details of tests performed

ShortDetails of tests performed
Control0..*
TypeBackboneElement
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
18. SOTT1Laboratory.labTests.id
Definition

Unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces.

ShortUnique id for inter-element referencing
Control0..1
Typestring
Is Modifierfalse
XML FormatIn the XML format, this property is represented as an attribute.
Summaryfalse
20. SOTT1Laboratory.labTests.extension
Definition

May be used to represent additional information that is not part of the basic definition of the element. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension.

ShortAdditional content defined by implementations
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifierfalse
Summaryfalse
Alternate Namesextensions, user content
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
SlicingThis element introduces a set of slices on SOTT1Laboratory.labTests.extension. The slices are unordered and Open, and can be differentiated using the following discriminators: , and can be differentiated using the following discriminators:
  • value @ url
22. SOTT1Laboratory.labTests.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
24. SOTT1Laboratory.labTests.sampleId
Definition

First Sample ID

ShortSample ID
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
26. SOTT1Laboratory.labTests.sampleType
Definition

Type of specimen (blood, stool, CSF, skin smear…..)

ShortType of specimen (blood, stool, CSF, skin smear…..)
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
28. SOTT1Laboratory.labTests.collectionDate
Definition

Collection date

ShortCollection date
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
30. SOTT1Laboratory.labTests.testPerformedDate
Definition

Date of test performed

ShortDate of test performed
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
32. SOTT1Laboratory.labTests.testPerformed
Definition

Test performed

ShortTest performed
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
34. SOTT1Laboratory.labTests.result
Definition

Result

ShortResult
Control0..1
BindingThe codes SHALL be taken from Results
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
36. SOTT1Laboratory.proteinuria
Definition

Record laboratory test results: Proteinuria

ShortProteinuria
Control0..1
BindingThe codes SHALL be taken from Yes No Unknown
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
38. SOTT1Laboratory.hematuria
Definition

Record laboratory test results: Hematuria

ShortHematuria
Control0..1
BindingThe codes SHALL be taken from Yes No Unknown
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
40. SOTT1Laboratory.haemoglobin
Definition

Record laboratory test results: Haemoglobin (g/l)

ShortHaemoglobin (g/l)
Control0..1
TypeQuantity
42. SOTT1Laboratory.WBC
Definition

Record laboratory test results: WBC count

ShortWBC count
Control0..1
TypeQuantity
44. SOTT1Laboratory.platelet
Definition

Record laboratory test results: Platelets

ShortPlatelets
Control0..1
TypeQuantity
46. SOTT1Laboratory.CRP
Definition

Record laboratory test results: CRP:

ShortCRP:
Control0..1
TypeQuantity
48. SOTT1Laboratory.potassium
Definition

Record laboratory test results: Potassium

ShortPotassium
Control0..1
TypeQuantity
50. SOTT1Laboratory.ALT
Definition

Record laboratory test results: ALT/SGPT

ShortALT/SGPT
Control0..1
TypeQuantity
52. SOTT1Laboratory.AST
Definition

Record laboratory test results: AST/SGOT

ShortAST/SGOT
Control0..1
TypeQuantity
54. SOTT1Laboratory.lactate
Definition

Record laboratory test results: Lactate

ShortLactate
Control0..1
TypeQuantity
56. SOTT1Laboratory.totalBilirubin
Definition

Record laboratory test results: Total bilirubin

ShortTotal bilirubin
Control0..1
TypeQuantity
58. SOTT1Laboratory.creatinine
Definition

Record laboratory test results: Creatinine

ShortCreatinine
Control0..1
TypeQuantity
60. SOTT1Laboratory.urea
Definition

Record laboratory test results: Urea

ShortUrea
Control0..1
TypeQuantity
62. SOTT1Laboratory.kinase
Definition

Record laboratory test results: Creatine kinase

ShortCreatine kinase
Control0..1
TypeQuantity
64. SOTT1Laboratory.otherBloodTest
Definition

Describe additional blood tests and give the results

ShortOther blood test:
Control0..1
TypeQuantity
66. SOTT1Laboratory.bloodGas
Definition

Record laboratory test results: Blood gasses analysis

ShortBlood gasses analysis
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
68. SOTT1Laboratory.arterialBloodPH
Definition

Record laboratory test results: Arterial blood PH

ShortArterial blood PH
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
70. SOTT1Laboratory.bicarbonates
Definition

Record laboratory test results: Bicarbonates

ShortBicarbonates
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
72. SOTT1Laboratory.PO2
Definition

Record laboratory test results: Partial pressure of oxygen

ShortPartial pressure of oxygen
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
74. SOTT1Laboratory.PCO2
Definition

Record laboratory test results: Partial pressure of carbon dioxide

ShortPartial pressure of carbon dioxide
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
76. SOTT1Laboratory.O2SAT
Definition

Record laboratory test results: Oxygen saturation

ShortOxygen saturation
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
78. SOTT1Laboratory.otherTestsPerformed
Definition

Other tests performed and results (even negative results)

ShortOther tests performed and results (even negative results)
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
80. SOTT1Laboratory.labConclusion
Definition

Evaluate the laboratory test results and draw a conclusion from these results

ShortLaboratory conclusion
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
82. SOTT1Laboratory.environmentSampleTaken
Definition

Where any environmental samples taken and submitted to a laboratory

ShortEnvironmental samples taken
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
84. SOTT1Laboratory.environmentSampleDetails
Definition

Details of environment sample

ShortDetails of environment sample
Control0..1
TypeBackboneElement
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
86. SOTT1Laboratory.environmentSampleDetails.id
Definition

Unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces.

ShortUnique id for inter-element referencing
Control0..1
Typestring
Is Modifierfalse
XML FormatIn the XML format, this property is represented as an attribute.
Summaryfalse
88. SOTT1Laboratory.environmentSampleDetails.extension
Definition

May be used to represent additional information that is not part of the basic definition of the element. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension.

ShortAdditional content defined by implementations
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifierfalse
Summaryfalse
Alternate Namesextensions, user content
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
SlicingThis element introduces a set of slices on SOTT1Laboratory.environmentSampleDetails.extension. The slices are unordered and Open, and can be differentiated using the following discriminators: , and can be differentiated using the following discriminators:
  • value @ url
90. SOTT1Laboratory.environmentSampleDetails.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
92. SOTT1Laboratory.environmentSampleDetails.environmentSample
Definition

Describe the environmental samples (soil, water, air, etc)

ShortProducts
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
94. SOTT1Laboratory.environmentSampleDetails.collectionDate
Definition

When where these environmental samples taken

ShortDate of collection
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
96. SOTT1Laboratory.animalSampleTaken
Definition

Where any animal samples taken and submitted to the laboratory (blood, oropharyngeal swabs, tissue, brain, feaces, etc)

ShortAnimal samples taken
Control0..1
BindingThe codes SHALL be taken from SOT Yes No
Typecode
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
98. SOTT1Laboratory.animalSampleDetails
Definition

Details of animal sample

ShortDetails of animal sample
Control0..1
TypeBackboneElement
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
100. SOTT1Laboratory.animalSampleDetails.id
Definition

Unique id for the element within a resource (for internal references). This may be any string value that does not contain spaces.

ShortUnique id for inter-element referencing
Control0..1
Typestring
Is Modifierfalse
XML FormatIn the XML format, this property is represented as an attribute.
Summaryfalse
102. SOTT1Laboratory.animalSampleDetails.extension
Definition

May be used to represent additional information that is not part of the basic definition of the element. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension.

ShortAdditional content defined by implementations
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifierfalse
Summaryfalse
Alternate Namesextensions, user content
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
SlicingThis element introduces a set of slices on SOTT1Laboratory.animalSampleDetails.extension. The slices are unordered and Open, and can be differentiated using the following discriminators: , and can be differentiated using the following discriminators:
  • value @ url
104. SOTT1Laboratory.animalSampleDetails.modifierExtension
Definition

May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and manageable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.

ShortExtensions that cannot be ignored even if unrecognized
Comments

There can be no stigma associated with the use of extensions by any application, project, or standard - regardless of the institution or jurisdiction that uses or defines the extensions. The use of extensions is what allows the FHIR specification to retain a core level of simplicity for everyone.

Control0..*
TypeExtension
Is Modifiertrue because Modifier extensions are expected to modify the meaning or interpretation of the element that contains them
Summarytrue
Requirements

Modifier extensions allow for extensions that cannot be safely ignored to be clearly distinguished from the vast majority of extensions which can be safely ignored. This promotes interoperability by eliminating the need for implementers to prohibit the presence of extensions. For further information, see the definition of modifier extensions.

Alternate Namesextensions, user content, modifiers
Invariantsele-1: All FHIR elements must have a @value or children (hasValue() or (children().count() > id.count()))
ext-1: Must have either extensions or value[x], not both (extension.exists() != value.exists())
106. SOTT1Laboratory.animalSampleDetails.animalSample
Definition

What kind of animal samples were taken (blood, oropharyngeal swabs, tissue, brain, feaces, etc)

ShortProducts
Control0..1
Typestring
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension
108. SOTT1Laboratory.animalSampleDetails.collectionDate
Definition

When were animal samples taken?

ShortDate of collection
Control0..1
Typedate
Primitive ValueThis primitive element may be present, or absent, or replaced by an extension