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Class: PET

A PET acquisition. Its own attributes are the ones defining the biological signal or spatial comparability, and so are likely to be useful for study selection, subgrouping, or image harmonization.

URI: neurostudy_ex:PET

 classDiagram
    class PET
    click PET href "../PET/"
      Acquisition <|-- PET
        click Acquisition href "../Acquisition/"

      PET : acquisition_duration_seconds





        PET --> "0..1" ExtractedNumber : acquisition_duration_seconds
        click ExtractedNumber href "../ExtractedNumber/"



      PET : acquisition_type

      PET : brain_coverage





        PET --> "0..1" ExtractedBrainCoverage : brain_coverage
        click ExtractedBrainCoverage href "../ExtractedBrainCoverage/"



      PET : device





        PET --> "0..1" Device : device
        click Device href "../Device/"



      PET : image_units





        PET --> "0..1" ExtractedString : image_units
        click ExtractedString href "../ExtractedString/"



      PET : local_id

      PET : modality





        PET --> "1" ExtractedModality : modality
        click ExtractedModality href "../ExtractedModality/"



      PET : mode_of_administration





        PET --> "0..1" ExtractedString : mode_of_administration
        click ExtractedString href "../ExtractedString/"



      PET : reconstructed_voxel_size_mm





        PET --> "0..1" ExtractedNumberList : reconstructed_voxel_size_mm
        click ExtractedNumberList href "../ExtractedNumberList/"



      PET : scan_type





        PET --> "0..1" ExtractedString : scan_type
        click ExtractedString href "../ExtractedString/"



      PET : spatial_resolution_mm





        PET --> "0..1" ExtractedNumberList : spatial_resolution_mm
        click ExtractedNumberList href "../ExtractedNumberList/"



      PET : stable_id

      PET : tracer_name





        PET --> "0..1" ExtractedString : tracer_name
        click ExtractedString href "../ExtractedString/"



      PET : tracer_radionuclide





        PET --> "0..1" ExtractedString : tracer_radionuclide
        click ExtractedString href "../ExtractedString/"



      PET : uptake_time_seconds





        PET --> "0..1" ExtractedNumber : uptake_time_seconds
        click ExtractedNumber href "../ExtractedNumber/"

Inheritance

Slots

Name Cardinality and Range Description Inheritance
image_units 0..1
ExtractedString		 Units encoded in the PET image, such as Bq/mL or SUV direct
tracer_name 0..1
ExtractedString		 Name of the injected tracer compound direct
tracer_radionuclide 0..1
ExtractedString		 Radioisotope labeling the tracer, such as C11, F18, or O15 direct
mode_of_administration 0..1
ExtractedString		 Tracer administration mode, such as bolus, infusion, or bolus plus infusion direct
scan_type 0..1
ExtractedString		 Whether the analyzed PET data were acquired or summarized as a static or dyna... direct
uptake_time_seconds 0..1
ExtractedNumber		 Interval from tracer administration to the start of the analyzed scan window,... direct
reconstructed_voxel_size_mm 0..1
ExtractedNumberList		 Reconstructed PET voxel size [x, y, z] in millimeters direct
spatial_resolution_mm 0..1
ExtractedNumberList		 Reported reconstructed spatial resolution, such as FWHM dimensions, in millim... direct
stable_id 0..1
String		 UUID minted by the store the first time this entity appears, never by an extr... Acquisition
local_id 1
String		 Acquisition
acquisition_type 1
String		 The concrete subclass this record instantiates Acquisition
modality 1
ExtractedModality		 Imaging or recording modality Acquisition
acquisition_duration_seconds 0..1
ExtractedNumber		 Total usable acquisition or recording duration in seconds Acquisition
device 0..1
Device		 The scanner, amplifier, or recording system this acquisition was made on, by ... Acquisition
brain_coverage 0..1
ExtractedBrainCoverage		 How much of the brain the acquired volume contained Acquisition

Identifier and Mapping Information

Schema Source

  • from schema: https://neurostuff.org/schemas/neuroimaging-study-extraction

Mappings

Mapping Type Mapped Value
self neurostudy_ex:PET
native neurostudy_ex:PET

LinkML Source

Direct

name: PET
description: A PET acquisition. Its own attributes are the ones defining the biological
  signal or spatial comparability, and so are likely to be useful for study selection,
  subgrouping, or image harmonization.
from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction
rank: 1000
is_a: Acquisition
attributes:
  image_units:
    name: image_units
    description: Units encoded in the PET image, such as Bq/mL or SUV.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedString
  tracer_name:
    name: tracer_name
    description: Name of the injected tracer compound.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedString
  tracer_radionuclide:
    name: tracer_radionuclide
    description: Radioisotope labeling the tracer, such as C11, F18, or O15.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedString
  mode_of_administration:
    name: mode_of_administration
    description: Tracer administration mode, such as bolus, infusion, or bolus plus
      infusion.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedString
  scan_type:
    name: scan_type
    description: Whether the analyzed PET data were acquired or summarized as a static
      or dynamic scan.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedString
  uptake_time_seconds:
    name: uptake_time_seconds
    description: Interval from tracer administration to the start of the analyzed
      scan window, in seconds.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedNumber
  reconstructed_voxel_size_mm:
    name: reconstructed_voxel_size_mm
    description: Reconstructed PET voxel size [x, y, z] in millimeters.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedNumberList
  spatial_resolution_mm:
    name: spatial_resolution_mm
    description: Reported reconstructed spatial resolution, such as FWHM dimensions,
      in millimeters.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    domain_of:
    - PET
    range: ExtractedNumberList

Induced

name: PET
description: A PET acquisition. Its own attributes are the ones defining the biological
  signal or spatial comparability, and so are likely to be useful for study selection,
  subgrouping, or image harmonization.
from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction
rank: 1000
is_a: Acquisition
attributes:
  image_units:
    name: image_units
    description: Units encoded in the PET image, such as Bq/mL or SUV.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedString
  tracer_name:
    name: tracer_name
    description: Name of the injected tracer compound.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedString
  tracer_radionuclide:
    name: tracer_radionuclide
    description: Radioisotope labeling the tracer, such as C11, F18, or O15.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedString
  mode_of_administration:
    name: mode_of_administration
    description: Tracer administration mode, such as bolus, infusion, or bolus plus
      infusion.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedString
  scan_type:
    name: scan_type
    description: Whether the analyzed PET data were acquired or summarized as a static
      or dynamic scan.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedString
  uptake_time_seconds:
    name: uptake_time_seconds
    description: Interval from tracer administration to the start of the analyzed
      scan window, in seconds.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedNumber
  reconstructed_voxel_size_mm:
    name: reconstructed_voxel_size_mm
    description: Reconstructed PET voxel size [x, y, z] in millimeters.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedNumberList
  spatial_resolution_mm:
    name: spatial_resolution_mm
    description: Reported reconstructed spatial resolution, such as FWHM dimensions,
      in millimeters.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - PET
    range: ExtractedNumberList
  stable_id:
    name: stable_id
    description: UUID minted by the store the first time this entity appears, never
      by an extractor, and kept across re-runs so a later extraction matches the same
      entity.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    owner: PET
    domain_of:
    - Arm
    - Timepoint
    - Group
    - Task
    - Condition
    - Assessment
    - Region
    - Acquisition
    - Device
    - Analysis
    - Measure
    - Preprocessing
    - ModelEstimation
    - ModelTerm
    - InferenceSettings
    - Table
    - CoordinateSet
    - Study
    range: string
    pattern: ^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$
  local_id:
    name: local_id
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    identifier: true
    owner: PET
    domain_of:
    - Arm
    - Timepoint
    - Group
    - Task
    - Condition
    - Assessment
    - Region
    - Acquisition
    - Device
    - Analysis
    - Measure
    - Preprocessing
    - ModelEstimation
    - ModelTerm
    - InferenceSettings
    - Table
    - CoordinateSet
    - Study
    range: string
    required: true
  acquisition_type:
    name: acquisition_type
    description: The concrete subclass this record instantiates. Derived by the mapper
      from the modality value's `instantiates`, never extracted.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    designates_type: true
    owner: PET
    domain_of:
    - Acquisition
    range: string
    required: true
  modality:
    name: modality
    description: 'Imaging or recording modality. A value in the Modality vocabulary
      also names the class holding this acquisition''s modality-specific parameters,
      through that value''s `instantiates`.

      Open vocabulary: write the source''s own wording in the field when nothing here
      fits, because the value is required and a closed range would discard the whole
      acquisition over one unrecognised word. Only a vocabulary value carries an `instantiates`,
      so an acquisition outside it resolves to the base class until normalization
      maps the wording back on -- which is why `acquisition_type` is derived rather
      than extracted, and why an unmapped modality is worth reporting.'
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - Acquisition
    range: ExtractedModality
    required: true
  acquisition_duration_seconds:
    name: acquisition_duration_seconds
    description: Total usable acquisition or recording duration in seconds. Useful
      for filtering studies by the amount of data contributing to an analysis, especially
      resting-state and continuous recordings.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - Acquisition
    range: ExtractedNumber
  device:
    name: device
    description: The scanner, amplifier, or recording system this acquisition was
      made on, by identifier. Acquisitions made on one machine reference one record;
      a second record asserts the study used a second machine.
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - Acquisition
    range: Device
    inlined: false
  brain_coverage:
    name: brain_coverage
    description: 'How much of the brain the acquired volume contained. This is the
      extent the SCANNER sampled, and it is a third axis distinct from the two the
      schema already carries: `Analysis.spatial_scope` is what the analysis tested,
      and `InferenceSettings.correction_scope` with `search_volume` is where multiple
      comparisons were controlled. A voxelwise analysis over a volume that clipped
      the cerebellum is `whole_brain` in scope and `partial` here, and an ROI analysis
      of a whole-head acquisition is the reverse. Never infer this from either of
      those.

      It describes the volume behind the REPORTED results. A scan that clipped a structure
      in participants who were then excluded is `whole_brain`, because the analysed
      volume was not clipped; calling it `partial` would say the opposite of what
      the results rest on.

      A field of view or slice prescription in millimetres is not by itself a statement
      of coverage. Where only the geometry is given, the value is an inference and
      `value_source` records it as one. Which structure a partial volume missed is
      not a field of its own -- the evidence span carries that detail.'
    from_schema: https://neurostuff.org/schemas/neuroimaging-study-extraction/acquisition
    rank: 1000
    owner: PET
    domain_of:
    - Acquisition
    range: ExtractedBrainCoverage