IBO
type: Ontology
date: 10/04/2018
created by: Emna Amdouni and Bernard Gibaud
IAO_0000115: IBO is a biomedical ontology that enables the annotation of imaging biomarker data (e.g., measurement processes, measures, clinical processes, imaging datasets, etc.).
imports: CHEBI extracted terms.owl
imports: FMA extracted terms.owl
imports: GO extracted terms.owl
imports: OBCS extracted terms.owl
imports: OGMS extracted terms.owl
imports: PATO extracted terms.owl
imports: UO extracted terms.owl
imports: bfo.owl
imports: obi extracted terms.owl
imports: QIBO extracted terms
imports: ONL DP extracted terms

RO_0000087
comment: We have changed the initial BFO definition of the relation 'has role'. We have define that every continuant (dependent or independent) are authorized to inheres a role when it participate in a given process. Imaging biomarker values have their associated roles which can be a diagnostic, predictive, prognosis and surrogate endpoint role.

is_estimated_from
type: ObjectProperty
IAO_0000115: 'is estimated from' is a specification of the relationship 'is about' and it serves to link an 'information content entity' to another 'information content entity'.
creation date: 27/11/2015
created by: PERSONS: Emna Amdouni, Yanncik Morvan and Bernard Gibaud
comment: This relationship can be used to denotes how a particular information content entity was been derived from another 'information content entity'.
range: IAO_0000030
domain: IAO_0000030
sub property of: IAO_0000136

is_process_profile_measurement_of
type: ObjectProperty
is defined by: Emna Amdouni, Yannick Morvan and Bernard Gibaud
range: BFO_0000144
domain: IAO_0000109
sub property of: IAO_0000136

MR dataset
version info: 1.1
comment: A MR DATASET is either a RECONSTRUCTED DATASET or a NON- RECONSTRUCTED DATASET. However, the applications considered in the context of the Neurolog project concern essentially RECONTRUCTED MR DATASETS. So, for simplicity, all the specializations of MR DATASETS currently defined in the ontology are RECONSTRUCTED DATASETS. This choice will be reconsidered later on to take into account both RECONTRUCTED and NON-RECONSTRUCTED MR DATASETS.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: MR dataset
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

dataset
equivalent class: Class
  intersection of: IAO_0000100
  intersection of: Restriction
    on property: BFO_0000178
    some values from: dataset metadata
  intersection of: Restriction
    on property: BFO_0000178
    some values from: dataset set of values
  intersection of: Restriction
    on property: BFO_0000178
    some values from: region of interest
  intersection of: Restriction
    on property: IAO_0000136
    some values from: anatomical structure
version info: 1.1
IAO_0000115: A DATASET is a PROPOSITION. [EP/ER] Every DATASET has for proper part exactly one DATASET SET OF VALUES during a TIME INTERVAL. [EP/ER] Every DATASET has for proper part exactly one DATASET META-DATA during a TIME INTERVAL. [EP/ER] Every DATASET is expressed by at least one DATASET EXPRESSION at a TIME INTERVAL. [EP/ER] Every DATASET is physically realized by at least one FILE at a TIME INTERVAL. [EP/ICL] No DATASET is a DATASET META-DATA. [EP/ICL] No DATASET is a DATASET SET OF VALUES.
comment: DATASETS are divided among MR DATASETS, PET DATASETS, CT DATASETS, SPECT DATASETS, MEG DATASETS, and EEG DATASETS according to their modality. We chose to restrict the definition of these modality DATASETS. All the parameters derived from such modality DATASETS, such as QUANTITATIVE T1 DATASET, etc., are not considered as modality DATASETS. [SA] DATASETS are divided among SINGLE SUBJECT DATASETS and MULTIPLE SUBJECT DATASETS according to whether they refer to one SUBJECT or not. [SA] DATASETS are divided among ANATOMICAL DATASETS, FUNCTIONAL DATASETS, METABOLIC DATASETS, and HEMODYNAMIC DATASETS according to the kind of entity they explore. [SA] DATASETS are divided among REGISTRATION DATASETS, SEGMENTATION DATASETS, TEMPLATE DATASETS, etc., according to the kind of processing they are the result of. [SA] DATASETS are divided among RECONSTRUCTED DATASETS and NON-RECONSTRUCTED DATASETS whether they provide measurements at well-identified locations in 3D space.
creation date: September 30th, 2008
IAO_0000111: dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

dataset metadata
subclass of: IAO_0000100
version info: 1.1
IAO_0000115: Every DATASET META-DATA is a proper part of exactly one DATASET during a TIME INTERVAL. No DATASET META-DATA is a DATASET. No DATASET META-DATA is a DATASET SET OF VALUES.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
creation date: September 30th, 2008
IAO_0000111: dataset metadata
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

dataset set of values
subclass of: IAO_0000100
version info: 1.1
IAO_0000115: A DATASET SET OF VALUES is a PROPOSITION. Every DATASET SET OF VALUES is a proper part of only one DATASET during a TIME INTERVAL. No DATASET SET OF VALUES is a DATASET. No DATASET SET OF VALUES is a DATASET META-DATA.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
creation date: September 30th, 2008
IAO_0000111: data set of values
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

hemodynamic dataset
version info: 1.1
IAO_0000115: A HEMODYNAMIC DATASET is a DATASET which explores a blood flow.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: hemodynamic dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

parameter quantification dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: This class of PARAMETER QUANTIFICATION DATASETS subsumes all the RECONSTRUCTED DATASETS that measure clinically relevant biological quantities of the tissues, such as T1 value, regional cerebral blood volume, fractional anisotropy, etc. They generally result of post-processing of acquired images, based on some estimation model. The values represented in those datasets are considered as measures because they are supposed to be “reproducible when measured again, and also comparable with measurements made by others in others locations”
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: parameter quantification dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

segmentation dataset
subclass of: dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: segmentation dataset
IAO_0000115: segmentation-dataset is a dataset is a dataset which is the result of a segmentation at a time interval. Every segmentation dataset can be superimpposed with another reconstructed dataset or segmentation dataset or statistical dataset or parameter qunatification dataset. Based on AIM model definition, segmentation is a result segmentation of segmentation process where segmenting or partitioning digital image (s) in to a set of pixels. These pixels are stored in a separate file from the original image(s).
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
version info: 1.1
IAO_0000412: particular
IAO_0000114: IAO_0000120

single subject dataset
subclass of: dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: single subject dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

template dataset
subclass of: T2 star weighted dataset
version info: 1.1
IAO_0000115: A TEMPLATE DATASET is a STATISTICAL DATASET which is a result of a DATASETS MEAN CALCULATION at a TIME INTERVAL. [CP/SL] Every TEMPLATE DATASET is a STATISTICAL DATASET. [CP/ER] Every TEMPLATE DATASET refers to a GROUP OF SUBJECTS.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: template dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

calibration model application
creation date: October 16th, 2008
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

dataset processing
subclass of: OBI_0200000
IAO_0000118: Medical image computing
creation date: October 16th, 2008
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: dataset processing is a data transformation process that represents the process of extracting clinically relevant information or knowledge from medical images. While closely related to the field of medical imaging, data processing focuses on the computational analysis of the images, not their acquisition. The methods can be grouped into several broad categories: image segmentation, image registration, image-based physiological modeling, and others.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

fractional anisotropy calculation
equivalent class: Class
  intersection of: quantitative parameter estimation
  intersection of: Restriction
    on property: OBI_0000299
    some values from: fractional anisotropy measurement datum
IAO_0000117: A FRACTIONAL ANISOTROPY CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every FRACTIONAL ANISOTROPY CALCULATION has for data only a DIFFUSION TENSOR DATASET at a TIME INTERVAL. [EP/ER] Every FRACTIONAL ANISOTROPY CALCULATION has for result a FRACTIONAL ANISOTROPY DATASET at a TIME INTERVAL.
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

image segmentation
subclass of: Restriction
  on property: OBI_0000293
  some values from: dataset
IAO_0000115: A SEGMENTATION is a DATASET PROCESSING. [EP/ER] Every SEGMENTATION has for result at least one SEGMENTATION DATASET at a TIME INTERVAL. [CP/EVR] No SEGMENTATION has for data an EEG DATASET or a MEG DATASET or a NON-RECONSTRUCTED DATASET or a REGISTRATION DATASET or a MESH DATASET or a SEGMENTATION DATASET or a CALIBRATION DATASET at a TIME INTERVAL.
IAO_0000412: ONL-DP
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: medical image segmentation

mean diffusivity calculation
IAO_0000115: A MEAN DIFFUSIVITY CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every MEAN DIFFUSITY CALCULATION has for data only a DIFFUSION TENSOR DATASET at a TIME INTERVAL. [EP/ER] Every MEAN DIFFUSIVITY CALCULATION has for result a MEAN DIFFUSIVITY DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

quantitative parameter estimation
IAO_0000115: A QUANTITATIVE PARAMETER ESTIMATION is a medical image analysis. [EP/ER] Every QUANTITATIVE PARAMETER ESTIMATION has for result a PARAMETER QUANTIFICATION DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
comment: Quantitative parameter estimation is the procedure that leads to the quantitative estimation of a specific physiological parameter.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: quantitative parameter estimation
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000114: IAO_0000120

image reconstruction
subclass of: dataset processing
IAO_0000115: A RECONSTRUCTION is a DATASET PROCESSING. [EP/ER] Every RECONSTRUCTION has for data exactly one NON-RECONSTRUCTED DATASET at a TIME INTERVAL. [EP/ER] Every RECONSTRUCTION has for result exactly one RECONSTRUCTED DATASET at a TIME INTERVAL.
IAO_0000111: image reconstruction
IAO_0000114: IAO_0000123

resampling
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

statistical analysis
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: statistical analysis

CHEBI_37335
IAO_0000111: MRI contrast agent
IAO_0000115: MRI contrast agent is a pharmaceuical agent that represents contrast media used to improve the visibility of internal body structures in magnetic resonance imaging (MRI). The most commonly used compounds for contrast enhancement are gadolinium-based. Such MRI contrast agents shorten the relaxation times of atoms within body tissues following oral or intravenous administration.
IAO_0000119: WEB: https://en.wikipedia.org/wiki/MRI_contrast_agent

IAO_0000009
synonym: labeled symbol

IAO_0000032
equivalent class: Class
  intersection of: continuous measurement datum
  intersection of: Restriction
    on property: OBI_0001938
    some values from: OBI_0001931
IAO_0000112: lesion size, tumor volume, etc
comment: measurements can be described as scalar quantities.

OBCS_0000090
IAO_0000112: Examples include temperature with the Celsius scale, which has two defined points (the freezing and boiling point of water at specific conditions) and then separated into 100 intervals, date when measured from an arbitrary epoch (such as AD), percentage such as a percentage return on a stock, and direction measured in degrees from true or magnetic north.
synonym: interval scale

OBI_0000679
comment: in this context this term is used to represent the mean of grey levels' values.

OBI_0001007
subclass of: OBI_0000011
subclass of: Restriction
  on property: OBI_0000299
  some values from: dataset
subclass of: Restriction
  on property: BFO_0000055
  some values from: Restriction
    on property: RO_0000059
    some values from: OBI_0500000
IAO_0000111: medical image creation

OBI_0302910
comment: we have reused this term to define process that have as gaol to evaluate risk intervention.
comment: we have reused this term to define process that have as goal to evaluate risk intervention (predict the consequence of an intervention)

OBI_0600002
created by: PERSON: Andrew J.Buckler

PATO_0000047
subclass of: Restriction
  on property: RO_0000052
  some values from: organism
IAO_0000111: biological sex

UO_0000319
subclass of: IAO_0000003
IAO_0000111: radioactivity concentration

anatomical structure
subclass of: BFO_0000040
subclass of: Restriction
  on property: BFO_0000176
  some values from: organism
IAO_0000111: anatomical structure

cellular target
type: Class
subclass of: BFO_0000040
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: cellular target
IAO_0000114: IAO_0000428

Ex vivo subject
type: Class
subclass of: BFO_0000040
IAO_0000115: 'ex vivo subject' is an 'imaging subject' that refers to living tissue, substance or cells that can be extracted from an organism in order to realize some experimentations / measurements.
created by: PERSON: Andrew J.Buckler
IAO_0000119: WEB: https://en.wikipedia.org/wiki/Ex_vivo
comment: We have based our definition on the information presented in Wikipedia.
IAO_0000111: ex vivo subject
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000114: IAO_0000120

Imaging Agent
type: Class
subclass of: OBI_1110108
IAO_0000115: 'Imaging agent' is a 'material to be added' that represents chemicals designed to allow clinicians to determine whether a mass is benign or malignant and locate metastatic cancer sites in the body.
IAO_0000117: 'Imaging agent' is a 'material to be added' that represents chemicals designed to allow clinicians to determine whether a mass is benign or malignant and locate metastatic cancer sites in the body.
created by: PERSON: Andrew J.Buckler
comment: The development of an imaging agent involves synthesizing the agent to target a particular tumor or process, after which the imaging instruments can be adjusted to neutralize the target. Such agents are first examined via preclinical animal studies before engaging in early-phase human clinical studies.
IAO_0000119: WEB: https://en.wikipedia.org/wiki/Imaging_agent
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
source: http://purl.bioontology.org/ontology/QIBO
IAO_0000111: imaging agent

Imaging Subject
type: Class
subclass of: BFO_0000040
subclass of: Restriction
  on property: RO_0000087
  some values from: imaging subject role
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
created by: PERSON: Andrew J.Buckler
IAO_0000111: imaging subject
IAO_0000114: IAO_0000120

In vitro subject
type: Class
IAO_0000115: 'in vitro subject' is an 'imaging subject' that represents cells or biological molecules that are studied outside their normal biological context.
created by: PERSON: Andrew J.Buckler
IAO_0000112: for example proteins are examined in solution, or cells in artificial culture medium.
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
source: https://en.wikipedia.org/wiki/In_vitro
IAO_0000111: in vitro subject
IAO_0000114: IAO_0000120

In vivo subject
IAO_0000115: 'in vivo subject' is a 'subject' that is used in an vivo study. In vivo studies are those in which the effects of various biological entities are tested on whole, living organisms usually animals including humans, and plants as opposed to a partial or dead organism, or those done in vitro ("within the glass"), i.e., in a laboratory environment using test tubes, petri dishes etc. Examples of investigations in vivo include: the pathogenesis of disease by comparing the effects of bacterial infection with the effects of purified bacterial toxins; the development of antibiotics, antiviral drugs, and new drugs generally; and new surgical procedures.
created by: PERSON: Andrew J.Buckler
source: Wikipedia page: https://en.wikipedia.org/wiki/In_vivo
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000111: in vivo subject
IAO_0000114: IAO_0000120

metastasis
type: Class
subclass of: GO_0008150
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: metastasis

molecular target
type: Class
subclass of: BFO_0000040
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: molecular target
IAO_0000114: IAO_0000428

parameter extraction algorithm
type: Class
subclass of: IAO_0000064
created by: PERSON: Emna Amdouni

Phantom experimental subject
type: Class
subclass of: Imaging Subject
subclass of: Restriction
  on property: RO_0000087
  some values from: imaging subject role
IAO_0000115: 'phantom experimental subject' is an 'imaging subject' is a specially designed object that is scanned or imaged in the field of medical imaging to evaluate, analyze, and tune the performance of various imaging devices. A phantom is more readily available and provides more consistent results than the use of a living subject or cadaver, and likewise avoids subjecting a living subject to direct risk. Phantoms were originally employed for use in 2D x-ray based imaging techniques such as radiography or fluoroscopy, though more recently phantoms with desired imaging characteristics have been developed for 3D techniques such as MRI, CT, Ultrasound, PET, and other imaging methods or modalities.
created by: PERSON: Andrew J.Buckler
IAO_0000119: WEB: https://en.wikipedia.org/wiki/Imaging_phantom
IAO_0000111: imaging phantom experimental subject
IAO_0000114: IAO_0000120

Predicting response to therapy
type: Class
subclass of: OBI_0302910
created by: PERSON: Andrew J.Buckler
IAO_0000412: QIBO: http://bioportal.bioontology.org/ontologies/QIBO
IAO_0000111: predicting response to therapy

Prognosis
type: Class
subclass of: OBI_0000011
definition: A prognosis is a prediction of the probable course and outcome of a disease.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000412: QIBO: http://bioportal.bioontology.org/ontologies/QIBO
source: http://medical-dictionary.thefreedictionary.com/prognosis
IAO_0000111: medical prognosis

quantitation algorithm
type: Class
subclass of: IAO_0000064
created by: PERSON: Emna Amdouni

Screening
type: Class
subclass of: OBI_0000988
created by: PERSON: Andrew J.Buckler
IAO_0000412: QIBO: http://bioportal.bioontology.org/ontologies/QIBO
IAO_0000115: Screening in medicine, is a strategy used in a population to identify the possible presence of an as-yet-undiagnosed disease in individuals without signs or symptoms.
source: https://en.wikipedia.org/wiki/Screening_(medicine)
IAO_0000111: screening

staging
type: Class
subclass of: OBI_0000988
created by: PERSON: Andrew J.Buckler
IAO_0000412: QIBO: http://bioportal.bioontology.org/ontologies/QIBO
source: http://medical-dictionary.thefreedictionary.com/
IAO_0000115: satging is the determination of distinct phases or periods in the course of a disease, the life history of an organism, or any biological process.
IAO_0000111: staging

Treatment assessment
type: Class
subclass of: OBI_0000011
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000412: QIBO: http://bioportal.bioontology.org/ontologies/QIBO
IAO_0000111: treatment assessment
IAO_0000114: IAO_0000123

imaging biomarker volumetric flow rate datum
type: Class
equivalent class: Class
  intersection of: volumetric flow rate measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: Restriction
  on property: IAO_0000039
  some values from: UO_0000270
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: imaging biomarker volumetric flow rate datum

air contrast
type: Class
subclass of: gas contrast
IAO_0000412: http://www.radlex.org/RID/RID11590
id: RID11590

annotator role
type: Class
subclass of: BFO_0000023
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: annotator role

attapulgite
type: Class
subclass of: clay suspension
IAO_0000412: http://www.radlex.org/RID/RID11652
id: RID11652

b-19036
type: Class
subclass of: hepatobiliary chelate
IAO_0000412: http://www.radlex.org/RID/RID11685
id: RID11685

barium contrast agent
type: Class
subclass of: CHEBI_37335
id: RID11587
IAO_0000412: http://www.radlex.org/RID/RID11587

barium sulfate suspension
type: Class
subclass of: barium contrast agent
id: RID11588
IAO_0000412: http://www.radlex.org/RID/RID11588

bentonite
type: Class
subclass of: clay suspension
IAO_0000412: http://www.radlex.org/RID/RID11654
id: RID11654

blood pool contrast agent
type: Class
subclass of: CHEBI_37335
id: RID11661
IAO_0000412: http://www.radlex.org/RID/RID11661

carbon dioxide contrast
type: Class
subclass of: gas contrast
id: RID11591
IAO_0000412: http://www.radlex.org/RID/RID11591

choline/creatine ratio measurement datum
type: Class
subclass of: imaging biomarker ratio measurement datum
IAO_0000111: choline/creatine ratio
IAO_0000119: DICOM standard, Part 16
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: for single-proton MR spectroscopy, the ratio between the choline and creatine resonance peaks.
IAO_0000114: IAO_0000123
IAO_0000114: IAO_0000428

chromium labeled red blood cells
type: Class
subclass of: blood pool contrast agent
IAO_0000412: http://www.radlex.org/RID/RID11664
id: RID11664

chromium diethyl hia meglumine
type: Class
subclass of: hepatobiliary chelate
IAO_0000412: http://www.radlex.org/RID/RID11683
id: RID11683

clay suspension
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11651
id: RID11651

combination of oil emulsion and paramagnetic substance
type: Class
subclass of: CHEBI_37335
id: RID11648
IAO_0000412: http://www.radlex.org/RID/RID11648

conray
type: Class
subclass of: iothalamate
IAO_0000412: http://www.radlex.org/RID/RID38684
id: RID38684

conray 30
type: Class
subclass of: iothalamate
id: RID38686
IAO_0000412: http://www.radlex.org/RID/RID38686

conray 43
type: Class
subclass of: iothalamate
IAO_0000412: http://www.radlex.org/RID/RID38687
id: RID38687

cysto conray ii
type: Class
subclass of: iothalamate
IAO_0000412: http://www.radlex.org/RID/RID38685
id: RID38685

cystografin
type: Class
subclass of: diatrizoate
IAO_0000412: http://www.radlex.org/RID/RID38680
id: RID38680

cystografin dilute
type: Class
subclass of: diatrizoate
IAO_0000412: http://www.radlex.org/RID/RID38681
id: RID38681

diatrizoate
type: Class
subclass of: ionic high osmolality monomeric contrast agent
id: RID38676
IAO_0000412: http://www.radlex.org/RID/RID38676

drug delivery microbbubles
type: Class
subclass of: nonencapsulated microbbubbles
id: RID11605
IAO_0000412: http://www.radlex.org/RID/RID11605

emulsion containing baby formula with ferrous sulfate
type: Class
subclass of: combination of oil emulsion and paramagnetic substance
id: RID11649
IAO_0000412: http://www.radlex.org/RID/RID11649

emulsion containing corn oil and ferric ammonium citrate
type: Class
subclass of: combination of oil emulsion and paramagnetic substance
IAO_0000412: http://www.radlex.org/RID/RID11650
id: RID11650

encapsulated microbubbles
type: Class
subclass of: nonencapsulated microbbubbles
IAO_0000412: http://www.radlex.org/RID/RID11601
id: RID11601

FDA validated imaging biomarker measurement protocol function
type: Class
subclass of: OBI_0302838
created by: Emna Amdouni and Bernard Gibaud
IAO_0000111: FDA validated imaging biomarker measurement protocol function

ferric ammonium citrate
type: Class
subclass of: gadolinium chelate
id: RID11612
IAO_0000412: http://www.radlex.org/RID/RID11612

ferric chloride
type: Class
subclass of: gadolinium chelate
IAO_0000412: http://www.radlex.org/RID/RID11611
id: RID11611

ferrioxamine
type: Class
subclass of: tumor specific agent
IAO_0000412: http://www.radlex.org/RID/RID11675
id: RID11675

ferrioamine methanesulfonate
type: Class
subclass of: ferrioxamine
id: RID11676
IAO_0000412: http://www.radlex.org/RID/RID11676

ferixan
type: Class
subclass of: superparamagnetic iron oxide
IAO_0000412: http://www.radlex.org/RID/RID11643
id: RID11643

ferumoxides
type: Class
subclass of: superparamagnetic iron oxide
id: RID11644
IAO_0000412: http://www.radlex.org/RID/RID11644

ferumoxtran 10
type: Class
subclass of: ultrasmall superparamagnetic iron oxide
id: RID11647
IAO_0000412: http://www.radlex.org/RID/RID11647

foreign body
type: Class
subclass of: BFO_0000040
source: Radlex
definition: Objects that inadvertently enter the body or body cavities from the environment.
created by: PERSONS: Emna Amdouni and Bernard Giabud
id: RID5425
IAO_0000412: http://www.radlex.org/RID/RID5425
IAO_0000112: May include marker clips, coils, wires, catheter sleeves, injected or leaked silicone, metal or glass related to trauma, and implants.
IAO_0000118: 'foreign matter','fb','foreign object'

gadobenate dimeglumine
type: Class
subclass of: ionic linear gadolinium chelate with protein binding
id: RID11622
IAO_0000412: http://www.radlex.org/RID/RID11622

gadobutrol
type: Class
subclass of: nonionic macrocyclic gadolinium chelate
IAO_0000412: http://www.radlex.org/RID/RID11636
id: RID11636

gadodiamide
type: Class
subclass of: nonionic linear gadolinium chelate
id: RID11629
IAO_0000412: http://www.radlex.org/RID/RID11629

gadofosveset trisodium
type: Class
subclass of: ionic linear gadolinium chelate with protein binding
IAO_0000412: http://www.radlex.org/RID/RID11626
id: RID11626

gadolinium labeled albumin
type: Class
subclass of: blood pool contrast agent
IAO_0000412: http://www.radlex.org/RID/RID11662
id: RID11662

gadolinium labeled dextran
type: Class
subclass of: blood pool contrast agent
id: RID11663
IAO_0000412: http://www.radlex.org/RID/RID11663

gadolinium chelate
type: Class
subclass of: paramagnetic agent
IAO_0000115: A gadolinium chelate is a contrast agent which combines ion and ligand molecule, also known as the chelate complex. A ligand is the molecule that is used to bind the ion, in this case Gadolinium
IAO_0000412: http://www.radlex.org/RID/RID11613
id: RID11613

gadolinium oxide
type: Class
subclass of: reticuloendothelial contrast agent
id: RID11689
IAO_0000412: http://www.radlex.org/RID/RID11689

gadopentetate dimeglumine
type: Class
subclass of: ionic linear gadolinium chelate

gadoterate meglumine
type: Class
subclass of: ionic macrocyclic gadolinium chelate
id: RID11616
IAO_0000412: http://www.radlex.org/RID/RID11616

gadoteridol
type: Class
subclass of: nonionic macrocyclic gadolinium chelate
IAO_0000412: http://www.radlex.org/RID/RID11634
id: RID11634

gadoversetamide
type: Class
subclass of: nonionic linear gadolinium chelate
IAO_0000412: http://www.radlex.org/RID/RID11631
id: RID11631

gadoxetic acid disodium salt
type: Class
subclass of: ionic linear gadolinium chelate with protein binding
id: RID11624
IAO_0000412: http://www.radlex.org/RID/RID11624

gas contrast
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11589
id: RID11589

gastrografin
type: Class
subclass of: diatrizoate
id: RID38678
IAO_0000412: http://www.radlex.org/RID/RID38678

geometrical shape
type: Class
subclass of: image markup
IAO_0000119: Annotation and Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000115: a 'geometrical shape' is an 'image markup' which represents the shape of graphical drawing placed on a region of interest (ROI).
IAO_0000111: geometrical shape

helium contrast
type: Class
subclass of: gas contrast
IAO_0000412: http://www.radlex.org/RID/RID11593
id: RID11593

hepatobiliary chelate
type: Class
subclass of: hepatobiliary contrast agent
IAO_0000412: http://www.radlex.org/RID/RID11680
id: RID11680

hepatobiliary contrast agent
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11677
id: RID11677

hounsfield scale
type: Class
subclass of: OBCS_0000090
IAO_0000111: CT numbers
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: WEB: https://en.wikipedia.org/wiki/Hounsfield_scale
IAO_0000115: a 'Hounsfield scale' is a 'quantitative scale' for describing radiodensity. This scale represents a linear transformation of the original linear attenuation coefficient measurement in one in which the radiodensity of distilled water at standard pressure and temperature (STP) is defined as zero Hounsfield units (HU), while the radiodensity of air at STP is defined as -1000 HU.
synonym: hounsfield scale

hounsfield unit
type: Class
subclass of: IAO_0000003
IAO_0000412: http://www.owl-ontologies.com/Ontology1415135201.owl#RID39161
source: Radlex
created by: PERSON: Emna Amdouni
id: RID39161
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: hounsfield unit

hypaque
type: Class
subclass of: diatrizoate
IAO_0000412: http://www.radlex.org/RID/RID38682
id: RID38682

screening based on imaging biomarker
type: Class
equivalent class: Class
  intersection of: Screening
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: diagnostic imaging biomarker role
  intersection of: Restriction
    on property: OBI_0000299
    some values from: IAO_0000030
subclass of: Screening
IAO_0000115: 'screening based on imaging biomarker' is a 'screening' process that uses diagnostic biomarkers to detect and treat early stage disease in the asymptomatic population.
source: Book title: evaluation of biomarkers and surrogate endpoints in chronic disease link: https://books.google.fr/books?hl=fr&lr=&id=lVpopHW10dUC&oi=fnd&pg=PT1&dq=Evaluation+of+biomarkers+and+surrogate+endpoints+in+chronic+disease.+National+Academies+Press.&ots=5VC5wGE0x9&sig=QBHnoM0DvthLJKveycIaJN0u1Js#v=onepage&q=Evaluation%20of%20biomarkers%20and%20surrogate%20endpoints%20in%20chronic%20disease.%20National%20Academies%20Press.&f=false
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: screening based on imaging biomarker

image markup
type: Class
subclass of: image annotation
IAO_0000119: Annotation and Image Markup model (AIM): https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000115: an 'image markup' is an 'image annoatation' which represents graphical drawing and textual description that can be placed on image.
IAO_0000111: image markup

iodinated contrast agent
type: Class
subclass of: hepatobiliary contrast agent
id: RID11583
IAO_0000412: http://www.radlex.org/RID/RID11583

iodized oil
type: Class
subclass of: oil contrast
IAO_0000412: http://www.radlex.org/RID/RID12959
id: RID12959

ionic gadolinium chelate
type: Class
subclass of: gadolinium chelate
id: RID11614
IAO_0000412: http://www.radlex.org/RID/RID11614

ionic high osmolality monomeric contrast agent
type: Class
subclass of: ionic iodinated contrast agent
id: RID38675
IAO_0000412: http://www.radlex.org/RID/RID38675

ionic iodinated contrast agent
type: Class
subclass of: iodinated contrast agent
IAO_0000412: http://www.radlex.org/RID/RID11585
id: RID11585

ionic linear gadolinium chelate
type: Class
subclass of: ionic gadolinium chelate
id: RID11618
IAO_0000412: http://www.radlex.org/RID/RID11618

ionic linear gadolinium chelate with protein binding
type: Class
subclass of: ionic linear gadolinium chelate
IAO_0000412: http://www.radlex.org/RID/RID11621
id: RID11621

ionic macrocyclic gadolinium chelate
type: Class
subclass of: ionic gadolinium chelate
IAO_0000412: http://www.radlex.org/RID/RID11615
id: RID11615

iothalamate
type: Class
subclass of: ionic high osmolality monomeric contrast agent
id: RID38683
IAO_0000412: http://www.radlex.org/RID/RID38683

ioxithalamate
type: Class
subclass of: ionic high osmolality monomeric contrast agent
id: RID38688
IAO_0000412: http://www.radlex.org/RID/RID38688

isopaque
type: Class
subclass of: metrizoate
id: RID38692
IAO_0000412: http://www.radlex.org/RID/RID38692

Transfer constant measurement datum
type: Class
subclass of: imaging biomarker volume measurement datum
synonym: K_trans
IAO_0000115: K-trans is an 'imaging biomarker volume measurement datum' that represents the volume transfer constant between blood plasma and EES.
created by: PERSONS: Emna Amdouni and Bernard Gibaud.
IAO_0000111: Transfer constant
IAO_0000119: http://pfeifer.phas.ubc.ca/refbase/files/Tofts-JMRI-1999-10-223.pdf

kaolin pectate
type: Class
subclass of: clay suspension
id: RID11653
IAO_0000412: http://www.radlex.org/RID/RID11653

liposome
type: Class
subclass of: reticuloendothelial contrast agent
id: RID11690
IAO_0000412: http://www.radlex.org/RID/RID11690

image creation Log
type: Class
subclass of: logfile
subclass of: Restriction
  on property: IAO_0000136
  some values from: OBI_0001007
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000118: image creation Log

MR proton spectroscopy metabolites
type: Class
subclass of: CHEBI_23367
IAO_0000111: MR proton spectroscopy metabolites
created by: PERSONS: Emna Amdouni and Bernard Giabud

magnetite albumin microspheres
type: Class
subclass of: superparamagnetic contrast agent
IAO_0000115: http://www.radlex.org/RID/RID11639
id: RID11639

MD 76 R
type: Class
subclass of: diatrizoate
IAO_0000412: http://www.radlex.org/RID/RID38677
id: RID38677

MD gastroview
type: Class
subclass of: diatrizoate
id: RID38679
IAO_0000412: http://www.radlex.org/RID/RID38679

metalloporphyrin
type: Class
subclass of: tumor specific agent
id: RID11669
IAO_0000412: http://www.radlex.org/RID/RID11669

metrizoate
type: Class
subclass of: ionic high osmolality monomeric contrast agent
IAO_0000412: http://www.radlex.org/RID/RID38691
id: RID38691

microbubbles contrast
type: Class
subclass of: CHEBI_37335
id: RID11599
IAO_0000412: http://www.radlex.org/RID/RID11599

mineral oil contrast
type: Class
subclass of: oil contrast
IAO_0000412: http://www.radlex.org/RID/RID11597
id: RID11597

monoclonal antibody
type: Class
subclass of: tumor specific agent
id: RID11667
IAO_0000115: Antibodies produced by clones of cells such as those isolated after hybridization of activated b lymphocytes with neoplastic cells. These hybrids are often referred to as hybridomas. [MeSH]
IAO_0000412: http://www.radlex.org/RID/RID11667

N-acetylaspartate/creatine ratio measurement datum
type: Class
subclass of: imaging biomarker ratio measurement datum
IAO_0000111: N-acetylaspartate/choline ratio measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000114: IAO_0000123

nitroxide
type: Class
subclass of: tumor specific agent
IAO_0000412: http://www.radlex.org/RID/RID11672
id: RID11672

nitroxide stable free radicals
type: Class
subclass of: nitroxide
id: RID11673
IAO_0000412: http://www.radlex.org/RID/RID11673

none label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: eloquent brain label
subclass of: thickness of enhancing margin label option
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: none label option

nonencapsulated microbbubbles
type: Class
subclass of: microbubbles contrast
IAO_0000412: http://www.radlex.org/RID/RID11600
id: RID11600

nonionic gadolinium chelate
type: Class
subclass of: gadolinium chelate
id: RID11627
IAO_0000412: http://www.radlex.org/RID/RID11627

nonionic linear gadolinium chelate
type: Class
subclass of: nonionic gadolinium chelate
id: RID11628
IAO_0000412: http://www.radlex.org/RID/RID11628

nonionic macrocyclic gadolinium chelate
type: Class
subclass of: gadolinium chelate
id: RID11633
IAO_0000412: http://www.radlex.org/RID/RID11633

oil contrast
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11596
id: RID11596

oil emulsion contrast
type: Class
subclass of: oil contrast
IAO_0000412: http://www.radlex.org/RID/RID11598
id: RID11598

oral magnetic particles
type: Class
subclass of: superparamagnetic contrast agent

paramagnetic agent
type: Class
subclass of: CHEBI_37335
id: RID11610
IAO_0000412: http://www.radlex.org/RID/RID11610

perfluorochemical
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11656
id: RID11656

prognostic imaging biomarker role
type: Class
subclass of: imaging biomarker application role
definition: 'prognostic imaging biomarker role' is a 'role' that inheres in prognostic process, when used it enables the identification of patients with differing risks of a specific outcome. Thus, in rognostic process imaging biomarkers are used as a markers to differentiate categories of patients various risks for a fixed change , regardless of choice of the treatment (or choosing not to administer treatment)
created by: PERSONS: Emna Amdouni and Bernard Gibaud

imaging biomarker application
type: Class
equivalent class: Class
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: imaging biomarker application role
  intersection of: Restriction
    on property: OBI_0000299
    some values from: IAO_0000030
subclass of: OBI_0200000
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: imaging biomarker application is a 'data transformation' which represents imaging biomarker's role in a decision model context. This class defines the possible
IAO_0000112: imaging biomarkers are mainly used in the clinical context, to: *Diagnosis process *Prognosis *Assesment of response to therapeutic intervention *Prediction of the outcome of a therapeutic intervention, reccurence and survival ========================================================= A list of examples of use of imaging biomarkers are given in these refrences: *Publication: Medical imaging in personalised medicine: a white paper of the research committee of the European Society of Radiology (ESR): http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4376812/ (see table 2) *Book: Evaluation of Biomarkers and surrogate endpoints in chronic disease (institute of medicine)
IAO_0000114: IAO_0000125

imaging biomarker application model
type: Class
subclass of: IAO_0000064
IAO_0000115: An 'imaging biomarker application model' is an 'algorithm' that defines the different evaluation criteria that must be tested in order to make a decision. These criteria may include, patient age, type and number of therapies that have been realized, therapeutic response, etc. An 'imaging biomaker application model' is, thus, concretizied by an 'imaging biomarker application' .
created by: PERSON: Emna Amdouni

imaging biomarker assesment investigation
type: Class
equivalent class: Class
  intersection of: OBI_0302911
  intersection of: Restriction
    on property: OBI_0000293
    some values from: imaging biomarker value
subclass of: OBI_0302911
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: We validate a biomarker for a particular role and population.
IAO_0000111: imaging biomarker assesment investigation
IAO_0000114: IAO_0000123
IAO_0000114: IAO_0000428

imaging biomarker average value calculation algorithm
type: Class
subclass of: quantitation algorithm
id: RID39165
IAO_0000412: http://www.radlex.org/RID/RID39165
created by: PERSON: Emna Amdouni

diagnostic process based on imaging biomarker
type: Class
equivalent class: Class
  intersection of: OBI_0000988
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: diagnostic imaging biomarker role
  intersection of: Restriction
    on property: OBI_0000299
    some values from: IAO_0000030
IAO_0000115: 'diagnostic process based on imaging biomarker' is a 'performing a diagnosis' process that definitively establish the presence or not of a disease.
source: Book title: evaluation of biomarkers and surrogate endpoints in chronic disease link: https://books.google.fr/books?hl=fr&lr=&id=lVpopHW10dUC&oi=fnd&pg=PT1&dq=Evaluation+of+biomarkers+and+surrogate+endpoints+in+chronic+disease.+National+Academies+Press.&ots=5VC5wGE0x9&sig=QBHnoM0DvthLJKveycIaJN0u1Js#v=onepage&q=Evaluation%20of%20biomarkers%20and%20surrogate%20endpoints%20in%20chronic%20disease.%20National%20Academies%20Press.&f=false
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: diagnostic process based on imaging biomarker

investigation based on imaging biomarker
type: Class
subclass of: OBI_0000066
subclass of: Restriction
  on property: BFO_0000117
  some values from: imaging biomarker measurement process
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: imaging biomarker based investigation is an investiagtion that represents biomarker investigations in clinical trial and practice.
IAO_0000111: investigation based on imaging biomarker
IAO_0000114: IAO_0000123

predicting response to therapy based on imaging biomarker
type: Class
equivalent class: Class
  intersection of: Predicting response to therapy
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: imaging biomarker application role
  intersection of: Restriction
    on property: OBI_0000299
    some values from: IAO_0000030
subclass of: Predicting response to therapy
created by: PERSON: Emna Amdouni
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: predicting response to therapy based on imaging biomarker

prognosis based on imaging biomarker
type: Class
equivalent class: Class
  intersection of: Prognosis
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: prognostic imaging biomarker role
  intersection of: Restriction
    on property: OBI_0000299
    some values from: IAO_0000030
subclass of: Prognosis
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: prognosis based on imaging biomarker

staging based on imaging biomarker
type: Class
equivalent class: Class
  intersection of: staging
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: imaging biomarker application role
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: staging based on imaging biomarker

survival estimation based on imaging biomarker
type: Class
equivalent class: Class
  intersection of: survival estimation
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: prognostic imaging biomarker role
  intersection of: Restriction
    on property: OBI_0000299
    some values from: IAO_0000030
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: survival estimation based on imaging biomarker
IAO_0000115: survival estimation based on imaging biomarker is a survival estimation entity that represents the action of predicting organism's survival period.

imaging biomarker based treatment assessment
type: Class
equivalent class: Class
  intersection of: Treatment assessment
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: imaging biomarker application role
subclass of: Treatment assessment
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker based treatment assessment
IAO_0000114: IAO_0000123

imaging biomarker mean value calculation algorithm
type: Class
subclass of: quantitation algorithm
created by: PERSON: Emna Amdouni
IAO_0000412: http://www.radlex.org/RID/RID39224
id: RID39224

imaging biomarker measurement process
type: Class
equivalent class: Restriction
  on property: BFO_0000055
  some values from: Restriction
    on property: RO_0000059
    some values from: imaging biomarker measurement protocol
subclass of: OBI_0000471
subclass of: Restriction
  on property: OBI_0000293
  some values from: Class
    union of: IAO_0000027
    union of: organism
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker measurement process
IAO_0000115: imaging biomarker measurement process is a planned process which represents the set of realized actions that have to be executed to generate a biomarker value.
IAO_0000114: IAO_0000123

imaging biomarker measurement protocol
type: Class
equivalent class: Restriction
  on property: RO_0000085
  some values from: imaging biomarker measurement protocol function
subclass of: OBI_0000272
subclass of: Restriction
  on property: BFO_0000178
  some values from: image analysis protocol
subclass of: Restriction
  on property: BFO_0000178
  some values from: image creation protocol
subclass of: Restriction
  on property: BFO_0000178
  some values from: subject preparation protocol
subclass of: Restriction
  on property: BFO_0000178
  some values from: image processing protocol
IAO_0000111: imaging biomarker measurement protocol
IAO_0000115: An 'imaging biomarker protocol' is a 'protocol' that describes and defines the procedure of measurement, the calibrated measuring system parameters and the measurement conditions, to a generate a biomarker use with an intended role. Imaging process standards help sponsors ensure that imaging data are obtained in a manner that complies in a manner that complies with a trial's protocol, that the quality of imaging data is maintained within among clinical sites, and that there is a verifiable record of the imaging process.
created by: PERSON: Emna Amdouni
IAO_0000112: QIBA Profile: FDG-PET/CT as an Imaging Biomarker measuring Response to Cancer Therapy https://www.rsna.org/uploadedFiles/RSNA/Content/Science_and_Education/QIBA/QIBA_FDG-PET_Profile_v105_Publicly_Reviewed_Version_FINAL_11Dec2013.pdf

imaging biomarker measurement protocol function
type: Class
subclass of: BFO_0000034
subclass of: Restriction
  on property: BFO_0000054
  all values from: Restriction
    on property: OBI_0000299
    some values from: Class
      union of: Class
        intersection of: imaging biomarker value
        intersection of: Restriction
      union of: Restriction
        on property: is_process_profile_measurement_of
        some values from: BFO_0000144
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker measurement protocol function
IAO_0000114: IAO_0000123

imaging biomarker region of interest calculation algorithm
type: Class
subclass of: quantitation algorithm
IAO_0000412: http://www.radlex.org/RID/RID12781
created by: PERSON: Emna Amdouni
id: RID12781

imaging biomarker response to therapeutic intervention
type: Class
equivalent class: Class
  intersection of: response to therapeutic intervention
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: imaging biomarker application model
  intersection of: Restriction
    on property: OBI_0000293
    some values from: Class
      intersection of: imaging biomarker value
      intersection of: Restriction
        on property: RO_0000087
        some values from: intervention effect assessment role
subclass of: response to therapeutic intervention
source: Book title: evaluation of biomarkers and surrogate endpoints in chronic disease link: https://books.google.fr/books?hl=fr&lr=&id=lVpopHW10dUC&oi=fnd&pg=PT1&dq=Evaluation+of+biomarkers+and+surrogate+endpoints+in+chronic+disease.+National+Academies+Press.&ots=5VC5wGE0x9&sig=QBHnoM0DvthLJKveycIaJN0u1Js#v=onepage&q=Evaluation%20of%20biomarkers%20and%20surrogate%20endpoints%20in%20chronic%20disease.%20National%20Academies%20Press.&f=false
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker response to therapeutic intervention
IAO_0000115: imaging biomarker response to therapeutic intervention is a 'response to therapeutic intervention' that determines whether a therapy is having the intended effect on a disease and whether adverse effects arise.
IAO_0000114: IAO_0000123

imaging biomarker value
type: Class
equivalent class: Class
  intersection of: IAO_0000109
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: image analysis
  intersection of: Restriction
    on property: RO_0000087
    some values from: imaging biomarker application role
subclass of: Restriction
  on property: is_estimated_from
  some values from: Class
    intersection of: IAO_0000100
    intersection of: Restriction
      on property: OBI_0000295
      some values from: quantitative image analysis
subclass of: Class
  union of: Restriction
    on property: IAO_0000221
    some values from: BFO_0000019
  union of: Restriction
    on property: is_process_profile_measurement_of
    some values from: BFO_0000144
IAO_0000232: *Imaging biomarker value represents imaging biomarker values that composed of a solely measured quality e.g. tumor volume and imaging biomarkers that are functions of a measured quality and other factors (see ref1). *Imaging biomarker value entity covers qualitative and quantitative imaging biomarkers. *We can know the kind of the quality (anatomical, functional or molecular) that is studied by the biomarker value by refering to the nature of the imaging data set and this can be done thanks to the relationship 'is_estiamted_from'. Reference (ref1) page 3 of QIBA group, 'The emerging science of quantitative imaging biomarkers terminology and definitions for scientific studies and regulatory submissions'.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: an 'imaging biomarker value' is a measurement datum generated by an image analysis process which is the final part of a potentially complex measurement process. This complex measurement process may involve image creation, reconstruction, processing, etc, according to the defined protocol. Imaging biomarker values are classified into different categories based on their data types. Thus, we distinguish between quantitative and qualitative values.
IAO_0000111: imaging biomarker value
IAO_0000112: tumor volume, length, degree of contrast enhancement, necrosis, mass effect, contrast /T2 ratio, tumor heterogeneity (T2 heterogeneity), contrast/necrosis ratio , etc.
IAO_0000114: IAO_0000125

ROI delimitation
type: Class
subclass of: OBI_0000011
IAO_0000115: 'ROI delimitation' is a 'study design' execution that describes the process of delimitation of a certain region of interest that we want to study. This class regroups two categories of delimitation: manual and automatic delimitation.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000114: IAO_0000123

ROI manuel drawing
type: Class
subclass of: ROI delimitation
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: ROI manuel drawing
IAO_0000115: ROI manuel drawing is an ROI delimitation process that represents manuel drawing of ROIs arround the identified region by the imaging experts. The image analysis workstation enables imaging expert to define both 2D and 3D region of interest (ROIs). [QIBA page 45]
IAO_0000114: IAO_0000123
IAO_0000114: IAO_0000428

Rate constant between EES and blood plasma
type: Class
subclass of: imaging biomarker ratio measurement datum
synonym: K_ep
comment: K_ep = k_tans / v_e
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: Rate constant between EES and blood plasma
IAO_0000119: http://pfeifer.phas.ubc.ca/refbase/files/Tofts-JMRI-1999-10-223.pdf
synonym: k21, k2, 1/tc
comment: unit: min ^(-1)
IAO_0000114: IAO_0000123

reticuloendothelial contrast agent
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11688
id: RID11688

Standard uptake value
type: Class
subclass of: imaging biomarker activity measurement datum
IAO_0000111: standard uptake value
IAO_0000115: The standardized uptake value (SUV) is often used in positron emission tomography (PET) imaging for a simple semiquantitative analysis. Its use is particularly common in the analysis of fluorodeoxyglucose (FDG) images of cancer patients. The SUV is calculated either pixel-wise yielding a parametric image, or over a region of interest (ROI). This may be done for any image acquired at time point t, or for all images of a dynamic series acquired at multiple time points. The SUV is commonly defined as the ratio of (1) the tissue radioactivity concentration c (e.g. in MBq/kg = kBq/g) at time point t, and (2) the injected activity (e.g. in MBq, extrapolated to the same time t) divided by the body weight (e.g. in kg): SUV = C(T)/[injection dose (MBq)/patient's weight (kg)] SUVs are a convenient measure for the evaluation of [18F]FDG PET images within a subject to study therapy monitoring/therapy response, and also for comparison between subjects.
IAO_0000119: WEB: https://en.wikipedia.org/wiki/Standardized_uptake_value
created by: PERSONS: Emna Amdouni and Bernard Gibaud

standardized uptake value body surface area
type: Class
subclass of: Standard uptake value
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: standardized uptake value body surface area

standardized uptake value body weight
type: Class
subclass of: mass imaging biomarker measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
synonym: SUVbw
IAO_0000111: standardized uptake value body weight

Standardized Uptake Value ideal body weight
type: Class
subclass of: mass imaging biomarker measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: males: 48.0 + 1.06 * (height - 152) females: 45.5 + 0.91 * (height - 152)
synonym: SUVibw

standardized uptake value lean body mass
type: Class
subclass of: mass imaging biomarker measurement datum
IAO_0000111: Standardized Uptake Value lean body mass
IAO_0000115: males: 1.10 * weight – 120 * (weight/height)^2 females: 1.07 * weight – 148 * (weight/height)^2
created by: PERSONS: Emna Amdouni and Bernard Gibaud
synonym: SUVlbm

sucrose polyester
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11655
id: RID11655

superparamagnetic contrast agent
type: Class
subclass of: CHEBI_37335
id: RID11638
IAO_0000412: http://www.radlex.org/RID/RID11638

superparamagnetic iron oxide
type: Class
subclass of: superparamagnetic contrast agent
id: RID11641
IAO_0000412: http://www.radlex.org/RID/RID11641

T1/FLAIR ratio label
type: Class
subclass of: OBI_0000963
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: T1/FLAIR ratio label

T1/FLAIR ratio value specification
type: Class
subclass of: OBI_0001930
creation date: 17 December 2015
creation date: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: T1/FLAIR ratio value specification

T1/FLAIR ratio VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: T1/FLAIR ratio value specification
IAO_0000115: 'T1/FLAIR ratio VASARI criteria' is a 'categorical VASARI criteria' that represents tumor feature summary. ============================================================ *Expansive= size of pre-contrast T1 abnormality (exclusive of signal intensity) approximates size of FLAIR abnormality. *Mixed= size of T1 abnormality moderately less than FLAIR envelope. *Infiltrative= size of pre-contrast T1 abnormality much smaller than size of FLAIR abnormality (use T2 if FLAIR is not provided). possible values: 0._/ 1.exapnsive/ 2.mixed/ 3. infiltrative
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: T1/FLAIR ratio VASARI criteria

T2 star weighted dataset
type: Class
subclass of: MR dataset
subclass of: hemodynamic dataset
created by: PERSONS: Emna Amdouni, yannick Morvan and Bernard Gibaud

T2 star weighted template dataset
type: Class
subclass of: template dataset
subclass of: T2 star weighted dataset
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: T2 star weighted template dataset

targeted microbbubles
type: Class
subclass of: nonencapsulated microbbubbles
IAO_0000412: http://www.radlex.org/RID/RID11604
id: RID11604

telebrix
type: Class
subclass of: ioxithalamate
id: RID38689
IAO_0000412: http://www.radlex.org/RID/RID38689

telebrix 350
type: Class
subclass of: telebrix
id: RID38690
IAO_0000412: http://www.radlex.org/RID/RID38690

therapy monitoring
type: Class
subclass of: OBI_0000011
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: therapy monitoring

tumor specific agent
type: Class
subclass of: CHEBI_37335
IAO_0000412: http://www.radlex.org/RID/RID11666
id: RID11666

ultrasmall superparamagnetic iron oxide
type: Class
subclass of: superparamagnetic contrast agent
IAO_0000412: http://www.radlex.org/RID/RID11645
id: RID11645

X-ray attenuation coefficient
type: Class
subclass of: attenuation coefficient measurement datum
IAO_0000115: 'X-ray attenuation coefficient' is an 'attenuation coefficient measurement datum' is a coefficient that describes the fraction of a beam of X-rays or gamma rays that is absorbed or scattered per unit thickness of the absorber. This value basically accounts for the number of atoms in a cubic cm volume of material and the probability of a photon being scattered or absorbed from the nucleus or an electron of one of these atoms.
IAO_0000119: DICOM CP 1390 page 9
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: X-ray attenuation coefficient

x ray attenuation
type: Class
subclass of: PATO_0001241
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: x ray attenuation

xenon contrast
type: Class
subclass of: gas contrast
IAO_0000412: http://www.radlex.org/RID/RID11594
id: RID11594

activity measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000032
  intersection of: Restriction
    on property: IAO_0000039
    some values from: UO_0000128
  intersection of: Restriction
    on property: IAO_0000221
    some values from: PATO_0001740
IAO_0000115: An activity measurement datum is a scalar measurement which is the result of the activity quality measurement. This measure calculate the number of particles dacaying per unit time. Its unit of measure is becquerel.
IAO_0000117: PERSONS: Emna Amdouni, Yannick Morvan and Bernard Gibaud
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: activity measurement datum

all label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: all label option

apparent diffusion coefficient dataset
type: Class
subclass of: parameter quantification dataset
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: apparent diffusion coefficient dataset

apparent diffusion coefficient measurement datum
type: Class
subclass of: diffusion imaging biomarker measurement datum
subclass of: Restriction
  on property: is_process_profile_measurement_of
  some values from: movement of water molecules
subclass of: Restriction
  on property: OBI_0000312
  some values from: mean diffusivity calculation
subclass of: Restriction
  on property: RO_0000087
  some values from: diagnostic imaging biomarker role
subclass of: Restriction
  on property: IAO_0000136
  some values from: cellular proliferation
creation date: 13/01/2016
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: apparent diffusion coefficient measurement datum

area measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000032
  intersection of: Restriction
    on property: IAO_0000039
    some values from: UO_0000047
  intersection of: Restriction
    on property: IAO_0000221
    some values from: PATO_0001323
IAO_0000115: An 'area measurement datum' is a scalar measurement datum that is the result of the measurement of an area.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: area measurement datum

attenuation coefficient measurement datum
type: Class
subclass of: IAO_0000032
subclass of: Restriction
  on property: IAO_0000039
  some values from: hounsfield unit
IAO_0000119: https://en.wikipedia.org/wiki/Attenuation_coefficient
comment: Attenuation coefficient describes the extent to which the radiant flux of a beam is reduced as it passes through a specific material. It is used in the context of *X-rays or Gamma rays, where it is denoted μ and measured in cm−1; *Neutrons and nuclear reactors, where it is called macroscopic cross section (although actually it is not a section dimensionally speaking), denoted Σ and measured in m−1; *Solar and infrared radiative transfer in the atmosphere, albeit usually denoted with another symbol (given the standard use of μ = cos θ for slant paths); *Ultrasound attenuation, where it is denoted α and measured in dB·cm−1·MHz−1; *Acoustics for characterizing particle size distribution, where it is denoted α and measured in m−1.
definition: 'attenuation coefficient measurement datum' is a 'scalar measurement datum' that represents a quantitative numerical statement of the relative attenuation of the X-Ray beam at a specified point. An attenuation coefficient of the volume of a material characterizes how easily it can be penetrated by a beam of light, sound, particles, or other energy or matter. A small attenuation coefficient indicates that the material in question is relatively transparent, while a larger value indicates greater degrees of opacity. The attenuation coefficient is dependent upon the type of material and the energy of the radiation.
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
comment: Usually attenuation coefficient is expressed in Hounsfield units.
IAO_0000111: attenuation coefficient measurement datum

between 34 and 67 percent label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: between 34 and 67 percent label option

between 68 and 95 percent label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: between 68 and 95 percent label option

between 6 and 33 percent label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: between 6 and 33 percent label option

dichotomous imaging biomarker measurement datum
type: Class
subclass of: dichotomous measurement datum
subclass of: categorical imaging biomarker measurement datum
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000112: VASARI MR feature key: cyst ('yes', 'no'), hemorrhage ('yes', 'no'), cortical involvement ('yes', 'no'), deep WM invasion ('yes', 'no'), etc.
IAO_0000115: a 'binary categorical imaging biomarker measurement datum' is a binary categorical measurement that represent only two possible categorical values (labels) that can be assigned to an imaging biomarker value.
IAO_0000111: binary categorical imaging biomarker measurement datum
IAO_0000114: IAO_0000125

dichotomous measurement datum
type: Class
subclass of: categorical measurement datum
IAO_0000115: A 'dichotomous measurement datum' is a 'categorical measurement datum' that represents categorical data that can take one value between two labels.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
synonym: binary categorical measurement datum
IAO_0000111: dichotomous measurement datum
IAO_0000112: e.g. male/female.
IAO_0000114: IAO_0000125

binary discrete measurement datum
type: Class
subclass of: discrete measurement datum
IAO_0000115: A binary discrete measurement datum is a discrete measurement datum that represents categorical data in which there are only two categories.
created by: Emna Amdouni and Bernard Gibaud
IAO_0000112: Smoking status: smoker, non-smoker. Attendance: present, absent. Class: lower classman, upper classman.
IAO_0000111: binary discrete measurement datum

imaging biomarker application role
type: Class
subclass of: BFO_0000023
IAO_0000115: 'imaging biomarker application role' is a 'role' that inheres in an 'imaging biomarker value that is realized in an 'imaging biomarker application' in which an 'information content entity' (predicted value, conclusion, etc) is generated about the interpreted biomarker value.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker application role

body surface area
type: Class
subclass of: area measurement datum
creation date: 01/12/2015
synonym: BSA – body surface area
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: males & females: weight^0.425 * height^0.725 * 0.007184

brainstem categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: brainstem categorical label option

categorical VASARI criteria
type: Class
subclass of: categorical imaging biomarker measurement datum
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: VASARI criteria
IAO_0000114: IAO_0000123

categorical imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: categorical measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: qualitative image analysis
  intersection of: Restriction
    on property: OBI_0001938
    some values from: OBI_0001930
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: a 'categorical imaging biomarker measurement' is a 'categorical measurement datum' that represents nominal imaging biomarker values. Categorical imaging biomarker measurements are entities that fall into unordered categories.
IAO_0000111: categorical imaging biomarker measurement datum
IAO_0000112: for example VASARI criteria: side of tumor epicenter ('right', 'center/bilateral', 'left'), enhancement quality ('None', 'mild/minimal', 'Marked'), cyst ('No', 'Yes'), thickness of enhancing margin ('n/a', 'well defined', 'poorly defined').
IAO_0000114: IAO_0000125

categorical measurement datum
type: Class
subclass of: IAO_0000109
IAO_0000118: nominal mesurement datum
IAO_0000115: A 'categorical measurement datum' is a 'measurement datum' that is reported on a categorical scale.
created by: PERSON: Bjoern Peters
id: http://purl.obolibrary.org/obo/OBI_0000938
IAO_0000112: hair color: blonde, brown, red, black, etc. smoking status: smoker, non-smoker, etc.
synonym: nominal mesurement datum
IAO_0000111: Categorical measurement datum
IAO_0000114: IAO_0000125

cellular proliferation
type: Class
subclass of: GO_0008150
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: cellular proliferation

center categorical label option
type: Class
subclass of: side of tumor epicenter label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: center categorical label

cerebellum categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: cerebellum categorical label option

cerebral blood flow measurement datum
type: Class
subclass of: imaging biomarker volumetric flow rate datum
IAO_0000115: A 'cerebral blood flow measurement datum' is a 'volume blood flow measurement datum' that estimates the blood supply to the brain in a given period of time. An adult, CBF is typically 750 millilitres per minute or 15% of the cardiac output. This equates to an average perfusion of 50 to 54 millilitres of blood per 100 grams of brain tissue per minute. CBF is tightly regulated to meet the brain's metabolic demands.[
comment: Cerebral blood flow measurement datum is used as an indicator for tissue perfusion and vessel density.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: WEB: https://en.wikipedia.org/wiki/Cerebral_blood_flow
IAO_0000111: cerebral blood flow measurement datum

cerebral blood volume measurement datum
type: Class
subclass of: imaging biomarker volume measurement datum
comment: CBV is an important parameter for quantitative functional MRI (fMRI) and investigation of the blood oxygenation level-dependent (BOLD) signal mechanism.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: cerebral blood volume measurement datum

clinical practice investigation based on imaging biomarker
type: Class
subclass of: investigation based on imaging biomarker
subclass of: Restriction
  on property: OBI_0000293
  some values from: Class
    intersection of: homo sapiens
    intersection of: Restriction
      on property: RO_0000087
      some values from: OBI_0000093
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: clinical practice investigation based on imaging biomarker
IAO_0000114: IAO_0000123

clinical trial investigation based on imaging biomarker
type: Class
subclass of: investigation based on imaging biomarker
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: clinical trial investigation based on imaging biomarker
IAO_0000114: IAO_0000123

continuous imaging biomarker measurement datum
type: Class
subclass of: continuous measurement datum
subclass of: numerical imaging biomarker measurement datum
IAO_0000115: A 'continuous imaging biomarker measurement datum' is a 'continuous measurement datum' that represents imaging biomarker value as a continuous variable.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: continuous imaging biomaker measurement datum
IAO_0000114: IAO_0000125

continuous measurement datum
type: Class
subclass of: numerical measurement datum
IAO_0000115: A 'continuous measurement datum' is a 'numerical measurement datum' that can take any value between two numbers. Any value within an interval is possible with a fine enough measuring device. For example, blood pressure is usually measured to the nearest 2mm Hg, but could be measured with much greater resolution of difference. The interval measurement scale is intended for continuous data. Sometimes continuous data are given discrete values at certain thresholds, for example age a last birthday is a discrete value but age itself is a continuous quantity; in these situations it is reasonable to treat discrete values as continuous. Remember that information is lost when continuous data are recorded only in ranges (ordered categories), and the statistical analysis of continuous data is more powerful than that of categorical data.
IAO_0000112: For example, between 62 and 82 inches, there are a lot of possibilities: one participant might be 64.03891 inches tall, and another person might be 72.67025 inches tall. And there are literally millions of other possible heights between 62 and 82 inches.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: WEB: http://www.statsdirect.com/help/default.htm#basics/measurement_scales.htm
IAO_0000111: continuous measurement datum
IAO_0000114: IAO_0000125

cortical involvement VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: cortical involvement value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: cortical involvement VASARI criteria
IAO_0000115: non enhancing or enhancing tumor extending to the cortical mantle, or cortex is no longer distinguishable relative to subjacent tumor. possible values are: 0._/ 1.no/ 2.yes

cortical involvement label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: cortical involvement label option

cortical involvement value specification
type: Class
subclass of: OBI_0001930
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: cortical involvement value specification

discrete measurement datum
type: Class
subclass of: numerical measurement datum
subclass of: Restriction
  on property: OBI_0001938
  some values from: count value specification
IAO_0000115: 'discrete measurement datum' is a 'numerical measurement datum' that represents a simple count of things, natural numbers.Discrete data arise from observations that can only take certain numerical values, usually counts such as number of children or number of patients attending a clinic in a year.
comment: Ordered categorical data are sometimes treated as discrete data, this is wrong. For example, using the Registrar General's classification of social class, it would be wrong to say that class I is five times the socio-economic status as class V, as there is not a strict numerical relationship between these categories. Thus, ordered categorical data should not be treated as discrete data for statistical analysis. Discrete data may be treated as ordered categorical data in statistical analysis, but some information is lost in doing so.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: WEB: http://www.statsdirect.com/help/default.htm#basics/measurement_scales.htm
IAO_0000111: count measurement datum

count value specification
type: Class
subclass of: numeric value specification
subclass of: Restriction
  on property: OBI_0001937
  max qualified cardinality: 1
  on data range: integer
creation date: 17 December 2015
IAO_0000115: A 'count value specification' is a ' numerci value specification' that represents a natural number.
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: count value specification

creatine+choline / citrate ratio measurement datum
type: Class
subclass of: imaging biomarker ratio measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: creatine+choline / citrate ratio measurement datum
IAO_0000114: IAO_0000123

cyst
type: Class
subclass of: pathological structure
created by: Emna Amdouni and Bernard Gibaud
IAO_0000412: Radlex
IAO_0000115: a 'cyst' is a 'pathological structure' is a closed sac, having a distinct membrane and division compared to the nearby tissue. Hence, it is a cluster of cells that have grouped together to form a sac (not unlike the manner in which water molecules group together, forming a bubble)
IAO_0000111: cyst

cyst VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: cyst value specification
IAO_0000115: 'cyst criteria' is a 'categorical VASARI criteria' that describes cysts if they are well defined, rounded, often eccentric regions of very bright T2W signal and low T1W signal essentially matching CSF signal intensity, with very thin, regular, smooth, no enhancing or regular enhancing walls, possibly with thin, regular, internal. possible values: 0._/ 1.no/ 2.yes
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: cyst VASARI criteria

cyst label
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: cyst label

cyst value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: cyst label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: cyst value specification

deep WM invasion VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: deep WM invasion value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: deep WM invasion VASARI criteria
IAO_0000115: enhancing or nCET tumor extending into the internal capsule or brainstem. possible values are: 0._/ 1.no/ 2.yes

deep WM invasion label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: deep WM invasion label option

deep WM invasion value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: deep WM invasion label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: deep WM invasion value specification

derived measurement unit label
type: Class
subclass of: IAO_0000009
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: derived measurement datum

descriptive statistic parameter
type: Class
subclass of: IAO_0000027
IAO_0000115: A descriptive statistic parameter is a data item that describes a feature of a collection of information, or the quantitative description itself.
source: Wikipedia page: https://en.wikipedia.org/wiki/Descriptive_statistics
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: descriptive statistics
IAO_0000232: descriptive statistics are distinguished from inferential statistics (or inductive statistics), in that descriptive statistics aim to summarize a sample, rather than use the data to learn about the population that the sample of data is thought to represent. This generally means that descriptive statistics, unlike inferential statistics, are not developed on the basis of probability theory. Even when a data analysis draws its main conclusions using inferential statistics, descriptive statistics are generally also presented.

diagnostic imaging biomarker role
type: Class
subclass of: imaging biomarker application role
IAO_0000115: 'diagnostic imaging biomarker role' is a 'role' that inheres in diagnostic process
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: diagnostic imaging biomarker role

diffusion anisotropy
type: Class
subclass of: PATO_0001241
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: diffusion anisotropy

diffusion characteristics VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: diffusion characteristics value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: diffusion characteristics VASARI criteria
IAO_0000115: predominantly facilitated or restricted diffusion in the enhancing or nCET portion of the tumor. (based on ADC map). equivocal is neither. No ADC, use no-image, proportion of tissue not relevant.

diffusion characteristics label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: diffusion characteristics label option

diffusion characteristics value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: diffusion characteristics label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: diffusion characteristics value specification

diffusion imaging biomarker measurement datum
type: Class
subclass of: diffusion measurement datum
creation date: 13/01/2016
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: diffusion imaging biomarker measurement datum

diffusion measurement datum
type: Class
subclass of: IAO_0000032
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: diffusion measurement datum

diffusion of water molecules
type: Class
subclass of: BFO_0000015
creation date: 13/01/2016
created by: PERSONS: Emna Amdouni and Bernard Gibaud

echogenicity
type: Class
subclass of: PATO_0001241
created by: PERSONS: Emna Amdouni and Bernard Gibaud
comment: this term can be used to represent the ability of a material to create an ultrasound return echo.

edema crosses midline VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: edema crosses midline value specification
IAO_0000115: 'edema crosses midline VASARI criteria' is a 'categorical VASARI criteria' that represents a nCET crosses into contralateral hemisphere through white matter commissures (exclusive of herniated ipsilateral tissue). possible values are: 0._/ 1.n/a/ 2.no/ 3.yes
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: edema crosses midline VASARI criteria

edema crosses midline midline label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: edema crosses midline midline label option

edema crosses midline value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: edema crosses midline midline label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: edema crosses midline value specification

edema proportion VASARI criteria
type: Class
subclass of: ordered and categorical imaging biomarker measurement datum
subclass of: Restriction
  on property: OBI_0001938
  some values from: edema proportion value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: edema proportion VASARI criteria

edema proportion label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: edema proportion label option

edema proportion value specification
type: Class
subclass of: ordinal categorical value specification
subclass of: Restriction
  on property: OBI_0000999
  some values from: edema proportion label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni, Yannick Morvan and Bernrad Gibaud
IAO_0000111: edema proportion value specification

elasticity
type: Class
subclass of: PATO_0001241
created by: PERSONS: Emna Amdouni and Bernard Gibaud
comment: tis term can be used to represent elastic properties of the tissue

eloquent brain VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: eloquent brain value specification
IAO_0000115: 'eloquent brain criteria' is a 'categorical VASARI criteria' that evaluates if the geographic center or the enhancing component involve eloquent cortex (motor, language, vision) or key underlying white matter? 0._/ 1.none/ 2.speech motor/ 3.speech receptive/ 4.motor/ 5.vision
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: VASARI
IAO_0000111: eloquent brain VASARI criteria

eloquent brain label
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: eloquent brain label

eloquent brain value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: eloquent brain label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: eloquent brain value specification

enhancement quality VASARI criteria
type: Class
subclass of: ordered and categorical imaging biomarker measurement datum
subclass of: Restriction
  on property: OBI_0001938
  some values from: enhancement quality value specification
IAO_0000115: 'enhancement quality' is an 'ordered and categorical imaging biomarker measurement' that refers to the qualitative degree of contrast enhancement. The qualitative degree of contrast enhancement is defined as having all or portions of the tumor that demonstrate significantly higher signal on the post contrast T1W images compared to pre contrast T1W images. possible values: 0._/ 1.none/ 2.mild/ 3.marked
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: enhancement quality VASARI criteria
IAO_0000114: IAO_0000123

enhancement quality label
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernad Gibaud
IAO_0000111: enhancement quality label

enhancement quality value specification
type: Class
subclass of: ordinal categorical value specification
subclass of: Restriction
  on property: OBI_0000999
  some values from: enhancement quality label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni, Yannick Morvan and Bernard Gibaud
IAO_0000111: enhancement quality value specification

enhancing margin definition VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: enhancing margin definition value specification
IAO_0000115: 'enhancing margin definition VASARI criteria' is an 'ordred and categorical imaging biomarker measurement datum' that assess if most of the outside margin of the enhancement is well defined or poorly defined.
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: enhancing margin definition VASARI criteria
comment: the scoring is not applicable (n/a) if there is no contrast enhancement.

enhancing margin definition label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: enhancing margin definition label option

enhancing margin definition value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: enhancing margin definition label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: enhancing margin definition value specification

ependymal invasion VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: ependymal invasion value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: ependymal invasion VASARI criteria
IAO_0000115: invasion of any adjacent ependymal surface in continuity with enhancing or non-enhancing tumor matrix. possible values are: 0._/ 1.no/ 2.yes

ependymal invasion label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: ependymal invasion label option

ependymal invasion value specification
type: Class
subclass of: OBI_0001930
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: ependymal invasion value specification

expansive label option
type: Class
subclass of: T1/FLAIR ratio label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: expansive label option

extravascular extracellular space measurement datum
type: Class
subclass of: imaging biomarker volume measurement datum
synonym: V_e
IAO_0000111: EES
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: extravascular extracellular space calculates the volume of extravascular extracellular space per unit volume of tissue.
IAO_0000119: http://pfeifer.phas.ubc.ca/refbase/files/Tofts-JMRI-1999-10-223.pdf
comment: unit: volume of tissue ve (0 <ve < 1)

facilitated label option
type: Class
subclass of: OBI_0000963
subclass of: diffusion characteristics label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: facilitated label option

first order feature extraction
subclass of: OBI_0001028
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: first order feature extraction

fraction measurement datum
type: Class
subclass of: ratio measurement datum
synonym: /
IAO_0000115: A 'fraction measurement datum' is a 'numerical measurement datum' that represents represents a part of a whole or, more generally, any number of equal parts. When spoken in everyday English, a fraction describes how many parts of a certain size there are, for example, one-half, eight-fifths, three-quarters. simple fraction (examples: 1/2 and 24/7 consists of an integer numerator, displayed above a line (or before a slash), and a non-zero integer denominator, displayed below (or after) that line. Numerators and denominators are also used in fractions that are not common, including compound fractions, complex fractions, and mixed numerals.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: WEB: https://en.wikipedia.org/wiki/Fraction_(mathematics)
IAO_0000112: contrast/necrosis ratio, contrast/T2 ratio T1/FLAIR ratio aproximates size of FLAIR abnormality.
IAO_0000111: fraction measurement datum

fractional anisotropy measurement datum
type: Class
subclass of: numerical imaging biomarker measurement datum
subclass of: Restriction
  on property: OBI_0000312
  some values from: fractional anisotropy calculation
subclass of: Restriction
  on property: IAO_0000221
  some values from: Class
    intersection of: PATO_0002129
    intersection of: PATO_0002242
subclass of: Restriction
  on property: is_process_profile_measurement_of
  some values from: fractional anisotropy value variability
subclass of: Restriction
  on property: IAO_0000039
  some values from: UO_0000060
IAO_0000119: https://en.wikipedia.org/wiki/Fractional_anisotropy
created by: Emna Amdouni and Bernard Gibaud
synonym: FA value
comment: FA measure is a coefficient reflecting the fractional anisotropy of the tissues, derived from a diffusion weighted MR image. Fractional anisotropy is proportional to the square root of the variance of the eigen values divided by the square root of the sum of the squares of the eigen values.
IAO_0000115: Fractional anisotropy (FA) is a scalar value between zero and one that describes the degree of anisotropy of a diffusion process. A value of zero means that diffusion is isotropic, i.e. it is unrestricted (or equally restricted) in all directions. A value of one means that diffusion occurs only along one axis and is fully restricted along all other directions. FA is a measure often used in diffusion imaging where it is thought to reflect fiber density, axonal diameter, and myelination in white matter.
IAO_0000111: fractional anisotropy measurement datum
IAO_0000114: IAO_0000125

fractional anisotropy value variability
type: Class
subclass of: BFO_0000144
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: fractional anisotropy value variability
IAO_0000114: IAO_0000428

frontal categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: frontal categorical label option

gliomatosis label option
type: Class
subclass of: multifocal or multicentric label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: gliomatosis label option

global intensity distribution
type: Class
subclass of: intensity distribution
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: global intensity distribution

glycolysis measurement datum
type: Class
subclass of: imaging biomarker activity measurement datum
IAO_0000111: glycolysis
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: the amount glycolysis activity summed across all voxels in a defined region or within a defined range of SUV (on FDG-PET).

hemorrhage VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: hemorrhage value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: hemorrhage VASARI criteria
IAO_0000115: intrinsic hemorrhage in the tumor matrix. Any intrinsic foci of low signal on 12WI or high signal on T1WI (use B0 image if necessary for confirmation). possible values are: 0._/ 1.no/ 2.yes

hemorrhage label option
type: Class
subclass of: OBI_0000963
subclass of: Restriction
  on property: OBI_0000999
  some values from: hemorrhage label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: hemorrhage label option

hemorrhage value specification
type: Class
subclass of: OBI_0001930
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: hemorrhage value specification

human
type: Class
subclass of: homo sapiens
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: human

image annotation creation
type: Class
subclass of: slice of interest selection
IAO_0000115: 'image annotation' describes the action of adding textual information or graphical markups (annotation) to the image in order to enrich its semantic and facilitate its analysis by the other users.
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: medical image annotation creation
IAO_0000114: IAO_0000123
IAO_0000114: IAO_0000428

image analysis
type: Class
subclass of: dataset processing
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: image analysis

image analysis protocol
type: Class
subclass of: OBI_0000272
IAO_0000115: 'image analysis protocol' is a 'protocol' that defines
created by: PERSON: Emna Amdouni

image analysis workstation
type: Class
subclass of: OBI_0000968
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: QIBA profiles
IAO_0000111: image analysis workstation
IAO_0000115: image analysis workstation is a device that have the ability to receive and propagate the data output (imaging and metadata) collected from the image acquisition, reconstruction and post-processing activities. With the input data, the analysis workstation (and software analysis tools) will be able to make use of certain attribute values to perform certain measurements and computational analysis.

image annotation
type: Class
subclass of: IAO_0000030
subclass of: Restriction
  on property: IAO_0000136
  some values from: dataset
IAO_0000119: Annotation and Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000115: an 'image annotation' is an 'information content entity' that annotates images.
IAO_0000111: image annotation

image creation protocol
type: Class
subclass of: OBI_0000272
IAO_0000115: 'image creation protocol' is a 'protocol' that describes procedures that shall be performed and that precise how subjects should be imaged and how to parametrize the imaging devices so as to achieve reproducible quantitative endpoints.
comment: As it has been explained in QIBA profile FDG/PET CT, the motivation of controlling the image acquisition is that over the course of a trial, hardware and software updates will occur. The intent of the profile is to ensure the instrument gives the same results over the duration of the trial. QIBA profiles are available from: RSNA.ORG/QIBA.
created by: PERSON: Emna Amdouni

image post processing protocol
type: Class
subclass of: OBI_0000272
created by: PERSON: Emna Amdouni

image processing protocol
type: Class
subclass of: OBI_0000272
created by: PERSON: Emna Amdouni

image reconstruction protocol
type: Class
subclass of: OBI_0000272
created by: PERSON: Emna Amdouni

region of interest
type: Class
subclass of: IAO_0000100
subclass of: Restriction
  on property: BFO_0000176
  some values from: dataset
IAO_0000115: Image region is 'data set' that represents a subset of pixels of some image and that is identified for a particular purpose. Image region may be associated with one or more measurements
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: QIBA: http://qibawiki.rsna.org/images/5/58/ClinicalTrialResults_20121229_QIBA.doc
synonym: image region
IAO_0000111: region of interest
IAO_0000114: IAO_0000120

imaging agent injected dose
type: Class
subclass of: OBI_0000984
subclass of: Restriction
  on property: IAO_0000136
  some values from: Imaging Agent
IAO_0000111: imaging agent injected dose
IAO_0000115: 'imaging agent injected dose' is a 'dose' that indicates the volume of the injected imaging agent during patient preparation step.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud

imaging biomarker activity measurement datum
type: Class
equivalent class: Class
  intersection of: activity measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
created by: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker activity measurement datum

imaging biomarker area measurement datum
type: Class
equivalent class: Class
  intersection of: area measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
IAO_0000115: 'imaging biomarker area measurement datum' is an 'area measurement datum' that represents imaging biomarker that calculates the area quality.
created by: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker area measurement datum

imaging biomarker attenuation coefficient measurement
type: Class
equivalent class: Class
  intersection of: attenuation coefficient measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
created by: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker attenuation coefficient measurement

discrete imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: discrete measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: numerical imaging biomarker measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker count measurement datum
IAO_0000114: IAO_0000123

imaging biomarker fraction measurement datum
type: Class
equivalent class: Class
  intersection of: fraction measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: imaging biomarker ratio measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker fraction measurement datum
IAO_0000114: IAO_0000123

imaging biomarker length measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000408
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: imaging biomarker length measurement datum

mass density imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: mass density measurement datum
  intersection of: Restriction
    on property: IAO_0000221
    some values from: PATO_0001019
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
IAO_0000115: 'mass density imaging biomarker measurement datum' is a 'mass density measurement datum' that represents imaging biomarker that calculates the mass density quality of a certain independent continuant.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: mass density imaging biomarker measurement datum

imaging biomarker numerical score measurement datum
type: Class
equivalent class: Class
  intersection of: numerical score measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: continuous imaging biomarker measurement datum
IAO_0000115: 'imaging biomarker numerical score measurement datum' is a 'numerical score measurement datum' that represents imaging biomarkers' values that are based on aggregated scores.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000112: VASARI MR features
IAO_0000111: imaging biomarker numerical score measurement datum
IAO_0000114: IAO_0000125
IAO_0000114: IAO_0000428

imaging biomarker percent measurement datum
type: Class
equivalent class: Class
  intersection of: percent measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: imaging biomarker ratio measurement datum
IAO_0000115: 'imaging biomarker percent measurement datum' is a 'percent measurement datum' that represents imaging biomarker value that is expressed as a percent.
created by: Emna Amdouni and Bernard Gibaud
IAO_0000112: VASARI MR Feautres: proportion nCET,
IAO_0000111: imaging biomarker percent measurement datum

imaging biomarker ratio measurement datum
type: Class
equivalent class: Class
  intersection of: ratio measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: continuous imaging biomarker measurement datum
IAO_0000115: 'imaging biomarker ratio measurement datum' is a 'ratio mesaurement datum' that represent imaging biomarker value that is a ratio.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: imaging biomarker ratio measurement datum
IAO_0000114: IAO_0000125

imaging biomarker scalar score from composite inputs
type: Class
equivalent class: Class
  intersection of: OBI_0000970
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker scalar score composite inputs

imaging biomarker volume measurement datum
type: Class
equivalent class: Class
  intersection of: volume measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: Restriction
  on property: IAO_0000221
  some values from: metabolic volume
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging biomarker volume measurement datum

imaging characteristic
type: Class
subclass of: BFO_0000019
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging characteristic
IAO_0000114: IAO_0000428

imaging observation characteristic
type: Class
subclass of: imaging characteristic
IAO_0000112: "spiculated, "dense", "hypoechoic", "heterogeneous, ...
source: Annotation Image Markup (AIM) model
IAO_0000115: Imaging observation characteristic is a descriptors of imaging observation.
created by: PERSONS: Emna Amdouni and Bernard Gibaud

imaging physical characteristic
type: Class
subclass of: imaging characteristic
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging physical characteristic

imaging subject homo_sapiens
type: Class
equivalent class: Class
  intersection of: homo sapiens
  intersection of: Restriction
    on property: RO_0000087
    some values from: imaging subject role
subclass of: homo sapiens
subclass of: In vivo subject
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: imaging subject homo_sapiens

imaging subject human
type: Class
subclass of: human
subclass of: imaging subject homo_sapiens
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: imaging subject

imaging subject role
type: Class
subclass of: BFO_0000023
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: an imaging subject role is a role that inheres in an imaging subject and is realized by the process being imaged by an image acquisition device.
IAO_0000111: imaging subject role

indeterminate label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: indeterminate label option

infiltrative label option
type: Class
subclass of: T1/FLAIR ratio label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: infiltrative label option

insular categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: insular categorical label option

intensity distribution
type: Class
subclass of: BFO_0000019
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: intensity distribution

intervention effect assessment role
type: Class
subclass of: imaging biomarker application role
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: intervention effect assessment role

irregular label option
type: Class
subclass of: OBI_0000963
subclass of: non-enhancing margin definition label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: irregular label option

kurtosis value
type: Class
subclass of: statistical shape distribution parameter
IAO_0000119: In probability theory and statistics, kurtosis (from Greek: κυρτός, kyrtos or kurtos, meaning "curved, arching") is a measure of the "tailedness" of the probability distribution of a real-valued random variable. In a similar way to the concept of skewness, kurtosis is a descriptor of the shape of a probability distribution and, just as for skewness, there are different ways of quantifying it for a theoretical distribution and corresponding ways of estimating it from a sample from a population. There are various interpretations of kurtosis, and of how particular measures should be interpreted; these are primarily tail weight, peakedness (width of peak), and lack of shoulders (distribution primarily peak and tails, not in between).
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: Wikipedia page: https://en.wikipedia.org/wiki/Kurtosis
IAO_0000115: a 'kurtosis value' is a 'statistical shape distribution parameter' that gives an indication on the sharp and disentangled aspect or rather flattened of histogram, i.e. we search how uniform is the grey level distribution.
IAO_0000111: kurtosis value

less than 5 percent label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: less than 5 percent label option

less than 95 percent label option
type: Class
subclass of: OBI_0000963
subclass of: edema proportion label option
subclass of: proportion enhancing label
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: less than 95 percent label option

local intensity distribution
type: Class
subclass of: intensity distribution
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: local intensity distribution

logfile
type: Class
subclass of: IAO_0000088
IAO_0000115: In computing, a logfile is a file that records either events that occur in an operating system or other software runs, or messages between different users of a communication software.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000119: Wikipedia web page: https://en.wikipedia.org/wiki/Logfile
source: wikipedia

image analysis Log
type: Class
subclass of: logfile
subclass of: Restriction
  on property: IAO_0000136
  some values from: quantitative image analysis
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: image analysis Log
IAO_0000117: image analysis log is a logfile that records how an image analysis process has been realized. For our context, we will need to save the method used to define ROI and to extract the imaging biomarker value, setting parameters of the image analysis workstation.

image processing Log
type: Class
subclass of: logfile
subclass of: Restriction
  on property: IAO_0000136
  some values from: dataset processing
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: image post processing Log

image reconstruction Log
type: Class
subclass of: logfile
subclass of: Restriction
  on property: IAO_0000136
  some values from: image reconstruction
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: image reconstruction Log

subject preparation Log
type: Class
subclass of: logfile
subclass of: Restriction
  on property: IAO_0000136
  some values from: subject preparation
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: subject preparation Log

long axis
type: Class
subclass of: PATO_0000122

long axis measurement datum
type: Class
subclass of: imaging biomarker length measurement datum
subclass of: Restriction
  on property: IAO_0000221
  some values from: long axis
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000112: VASARI MR Feautres: lesion size represents largest perpendicular (x-y) cross-sectional diameter of T2 signal abnormality (longest dimension X perpendicular dimension) measured on a single axial image only.
IAO_0000111: long axis measurement datum
IAO_0000115: long axis measurement datum is a scalar measurement datum that represents the measurement result of long axis quality.

marked label option
type: Class
subclass of: enhancement quality label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: marked label option

mass density measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000032
  intersection of: Restriction
    on property: IAO_0000039
    some values from: UO_0000052
  intersection of: Restriction
    on property: IAO_0000221
    some values from: PATO_0001019
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: mass density measurement datum
IAO_0000115: mass density measurement datum is a scalar measurement datum that is the result of mass density quality measurement.

mass imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: mass measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: mass imaging biomarker measurement datum

mass measurement datum
type: Class
subclass of: IAO_0000032
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a mass measurement datum is a scalar measurement datum that is the result of measurement of mass quality
IAO_0000111: mass measurement datum

mass structure
type: Class
subclass of: pathological structure
created by: Emna Amdouni and Bernard Gibaud
IAO_0000118: focus,density,lesion,nodule,vague density
IAO_0000115: [PIRADS] A three-dimensional space occupying structure resulting from an accumulation of neoplastic cells, inflammatory cells, or cystic changes.
id: RID3874
IAO_0000412: http://www.radlex.org/RID/RID3874
IAO_0000111: mass

mean cerebral blood flow value
type: Class
subclass of: OBI_0000679
subclass of: imaging biomarker scalar score from composite inputs
creation date: 27/11/2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: mean cerebral blood flow value
IAO_0000114: IAO_0000428

mean cerebral blood volume value
type: Class
subclass of: OBI_0000679
subclass of: imaging biomarker scalar score from composite inputs
creation date: 27/11/2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: mean cerebral blood volume value
IAO_0000114: IAO_0000428

metabolic volume
type: Class
subclass of: PATO_0000918
IAO_0000115: the volume of a lesion (e.g, a tumor) ascertained through information about its metabolic activity (e.g., SUV on PET)
IAO_0000119: DICOM CP 1386

metabolic volume
type: Class
subclass of: imaging biomarker volume measurement datum
synonym: Metabolic Tumor Volume (MTV)
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: The volume of a lesion (e.g., a tumor) ascertained through information about its metabolic activity (e.g., SUV on PET).
IAO_0000111: metabolic volume

mild label option
type: Class
subclass of: enhancement quality label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: mild label option

mixed label option
type: Class
subclass of: T1/FLAIR ratio label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: mixed label option

motor label option
type: Class
subclass of: eloquent brain label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: motor label option

movement of water molecules
type: Class
subclass of: quality process profile
subclass of: Restriction
  on property: BFO_0000133
  some values from: diffusion of water molecules
creation date: 13/01/2016
created by: PERSONS: Emna Amdouni and Bernard Gibaud

multicentric label option
type: Class
subclass of: multifocal or multicentric label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: multicentric label option

multifocal label option
type: Class
subclass of: multifocal or multicentric label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: multifocal label option

multifocal or multicentric VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: multifocal or multicentric value specification
IAO_0000115: 'multifocal or multicentric criteria' is a 'categorical VASARI criteria' that represents if lesion is multifocal or multicentric. Multifocal is defined as having at least one region of tumor, either enhancing or nonenhancing which is not contiguous with the dominant lesion and is outside the region abnormality (edema) surrounding the dominant mass. This can be defined as those resulting from dissemination or growth by an established route, spread via commissural or other pathways, or via CSF channels or local metastases, whereas multicentric are widely separated lesions in different lobes or different hemispheres that cannot be attributed to one of the previously mentioned pathways. Gliomatosis refers to generalized neoplastic transformation of the white matter of most of a hemisphere. possible values are: 0._/ 1.n/a/ 2.multifocal/ 3.multicentric/ 4.gliomatosis
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: multifocal or multicentric VASARI criteria

multifocal or multicentric label
type: Class
subclass of: OBI_0000963
creation date: 17 december 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: multifocal or multicentric label

multifocal or multicentric value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: multifocal or multicentric label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: multifocal or multicentric value specification

N-acetylaspartate/creatine ratio measurement datum
type: Class
subclass of: imaging biomarker ratio measurement datum
IAO_0000111: N-acetylaspartate/creatine ratio measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000114: IAO_0000123

neither label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: neither label option

no label option
type: Class
subclass of: OBI_0000963
subclass of: cortical involvement label option
subclass of: cyst label
subclass of: deep WM invasion label option
subclass of: edema crosses midline midline label option
subclass of: ependymal invasion label option
subclass of: hemorrhage label option
subclass of: pial invasion label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: no

no image label option
type: Class
subclass of: OBI_0000963
subclass of: diffusion characteristics label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: no image label option

non-enhancing margin definition VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: non enhancing margin definition value specification
IAO_0000115: 'non-enhancing margin definition VASARI criteria' is a 'categorical VASARI criteria' that express if most of the outside non-enhancing margin of the tumor is well defined and smooth (geographic), versus if the margin is ill-defined and irregular.
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: non-enhancing margin definition VASARI criteria

non-enhancing margin definition label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: non-enhancing margin definition label option

non enhancing margin definition value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: non-enhancing margin definition label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: non enhancing margin definition value specification

none label option
type: Class
subclass of: OBI_0000963
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: none label option

not available label option
type: Class
subclass of: OBI_0000963
subclass of: edema crosses midline midline label option
subclass of: edema proportion label option
subclass of: enhancing margin definition label option
subclass of: multifocal or multicentric label
subclass of: non-enhancing margin definition label option
subclass of: proportion enhancing label
subclass of: proportion nCET label option
subclass of: proportion necrosis label option
subclass of: thickness of enhancing margin label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: not available label option

numerical imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: numerical measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: continuous measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: numeric imaging biomarker measurement datum
IAO_0000114: IAO_0000123

numeric value specification
type: Class
subclass of: OBI_0001933
subclass of: Restriction
  on property: OBI_0001937
  some values from: Datatype
    union of: integer
    union of: real
creation date: 17 December 2015
IAO_0000119: A 'numeric value specification' is a 'value specification' that specifies the representation format of numeric measurement datum.
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: numeric value specification

numerical measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000109
  intersection of: Restriction
    on property: OBI_0001938
    some values from: numeric value specification
IAO_0000115: 'numerical measurement datum' is an 'measurement datum' that represents quantitative values and that are expressed by numbers. Here, the objects being studied are “measured” based on some quantitative trait. The resulting data are set of numbers.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000112: cholesterol level, height , age, number of students late for class, time to complete a homework assignment
IAO_0000111: numerical measurement datum
IAO_0000118: quantitative value or variable
IAO_0000114: IAO_0000125

numerical score measurement datum
type: Class
subclass of: continuous measurement datum
IAO_0000112: APACHE score (acute physiological assessment and chronic health evaluation) a widely used method for assessing severity of illness in acutely ill patients in intensive care units, taking into account a variety of routine physiological parameters. Stroke score any of various scoring systems that seek to characterize a patient's clinical state following a stroke.
definition: Numerical score measurement datum is a continuous measurement datum that represents a rating, usually expressed numerically, based on specific achievement or the degree to which certain qualities are manifest.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000112: VASARI scores
IAO_0000119: http://medical-dictionary.thefreedictionary.com/score
IAO_0000111: numerical score measurement datum
IAO_0000114: IAO_0000428

occipital categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: occipital categorical label option

ordered and categorical imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: ordered categorical measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
  intersection of: Restriction
    on property: OBI_0001938
    some values from: ordinal categorical value specification
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000112: VASARI MR Feautres: thickness of enhancing margin ('none', 'thin', 'solid'), definition of margin ('well defined', poorly defined').
IAO_0000115: an 'ordinal and categorical imaging biomarker measurement datum' is an 'ordinal and categorical measurement datum' that represents nominal imaging biomarker values that are arranged according to some categorical scale.
IAO_0000111: ordered and categorical imaging biomarker measurement datum
IAO_0000114: IAO_0000125

ordered categorical measurement datum
type: Class
equivalent class: Class
  intersection of: categorical measurement datum
  intersection of: Restriction
    on property: OBI_0001938
    some values from: ordinal categorical value specification
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: an 'ordinal categorical measurement datum' is a 'categorical measurement datum' which represents nominal entities that are arranged according to some categorical scale. Here, data ordering is important.
IAO_0000111: ordered categorical measurement datum
IAO_0000114: IAO_0000125

ordinal categorical value specification
type: Class
subclass of: OBI_0001930
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: ordinal categorical value specification
IAO_0000114: IAO_0000123

parameter estimation
type: Class
subclass of: dataset processing
created by: PERSONS: Emna Amdouni and Bernard Gibaud

parietal categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: parietal categorical label option

pathological structure
type: Class
subclass of: BFO_0000040
IAO_0000115: 'pathological structure' is a 'material entity' that represents abnormal entities that we visualize on medical images. These structures can denotes the presence or absence of a certain pathology.
created by: PERSON: Emna Amdouni and Bernard Gibaud
IAO_0000111: pathological structure

percent measurement datum
type: Class
equivalent class: Class
  intersection of: ratio measurement datum
  intersection of: Restriction
    on property: OBI_0001938
    some values from: percent value specification
subclass of: ratio measurement datum
synonym: %
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000112: error in measurement,
IAO_0000111: percent measurement datum
IAO_0000115: percent measurement datum is a ratio measurement that denotes numbers as fractions of 100.

percent value specification
type: Class
subclass of: numeric value specification
subclass of: Restriction
  on property: OBI_0001937
  min qualified cardinality: 2
  on data range: real
comment: 0.01, 1%, and 10−2 respectively, all of which are equivalent to 1/100
creation date: 17 December 2015
IAO_0000115: A 'percent value specification' is a 'fraction value specification' that represents fractions that their dominator is e qual to 100. These fractions can be written explicitly without using explicit numerators or denominators, by using decimals, percent signs or negative exponents.
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: percent value specification

perfusion
type: Class
subclass of: PATO_0001241
created by: PERSONS: Emna Amdouni and Bernard Gibaud
comment: this term can be used todescribe the volume of blood perfusing ino tissue

phantom
type: Class
subclass of: BFO_0000040
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: phantom

pial invasion VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: pial invasion value specification
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: enhancement of the overlying pia in continuity with enhancing or non enhancing tumor. possible values are: 0._/ 1.no/ 2.yes
IAO_0000111: pial invasion VASARI criteria

pial invasion label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: pial invasion label option

pial invasion value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: pial invasion label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: pial invasion value specification

poorly defined option label
type: Class
subclass of: OBI_0000963
subclass of: enhancing margin definition label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: poorly defined option label

proportion enhancing label
type: Class
subclass of: OBI_0000963
IAO_0000115: 'proportion enhancing label' is a 'categorical label' that represents what proportion of the entire tumor is enhancing (assuming that the entire abnormality may be comprised of: 1) an enhancing component 2) a non-enhancing component 3) a necrotic component and 4) a edema component.)
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: portion enhancing label

predictive imaging biomarker role
type: Class
subclass of: imaging biomarker application role
IAO_0000115: 'predictive imaging biomarker role' is a 'role' that inheres in prediction process, imaging biomarker values are used in this context to predict the potential benefits (effectiveness) risks ( toxicity) treatment according to the status of the marker.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: predictive imaging biomarker role

proportion enhancing value specification
type: Class
subclass of: ordinal categorical value specification
subclass of: Restriction
  on property: OBI_0000999
  some values from: proportion enhancing label
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni, Yannick Morvan and Bernard Gibaud
IAO_0000111: proportion enhancing value specification

proportion nCET label option
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: proportion nCET label option

proportion necrosis VASARI criteria
type: Class
subclass of: ordered and categorical imaging biomarker measurement datum
subclass of: Restriction
  on property: OBI_0001938
  some values from: proportion necrosis value specification
IAO_0000115: 'proportion necrosis criteria' is an 'ordered and categorical imaging biomarker measurement' that describes necrotic zone. Necrosis is defined as a region within the tumor that does not enhance or shows markedly diminished enhancement, is high on T2W and proton density images, is low on T1W images, and has an irregular border. Assuming that the entire abnormality may be comprised of: 1) an enhancing component, 2) a non-enhancing component, 3) a necrotic component and 4) edema component.
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: proportion necrosis VASARI criteria

proportion necrosis label option
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: proportion necrosis label option

proportion necrosis value specification
type: Class
subclass of: ordinal categorical value specification
subclass of: Restriction
  on property: OBI_0000999
  some values from: proportion necrosis label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni, Yannick Morvan and Bernard Gibaud
IAO_0000111: proportion necrosis value specification

qualitative image analysis
type: Class
subclass of: image analysis
subclass of: Restriction
  on property: BFO_0000117
  some values from: qualitative parameter estimation
subclass of: Restriction
  on property: BFO_0000055
  some values from: Restriction
    on property: RO_0000059
    some values from: OBI_0500000
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: qualitative image analysis

qualitative parameter estimation
type: Class
subclass of: parameter estimation
created by: PERSONS: Emna AMDOUNI and Bernard Gibaud

quality process profile
type: Class
subclass of: BFO_0000144
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: quality process profile

quantitative image analysis
type: Class
subclass of: image analysis
subclass of: Restriction
  on property: BFO_0000117
  some values from: quantitative parameter estimation
subclass of: Restriction
  on property: BFO_0000055
  some values from: Restriction
    on property: RO_0000059
    some values from: OBI_0500000
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: image analysis is a study design execution that extracts meaningful information from images (ROIs measurements); mainly from digital images by means of digital image processing techniques.
IAO_0000111: quantitative image analysis
IAO_0000114: IAO_0000123

radioactivity imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: radioactivity measurement datum
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
IAO_0000115: 'radioactivity imaging biomarker measurement datum' is a 'radioactivity imaging biomarker measurement datum' that represents imaging biomarker value that measures radioactivity quality.
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000112: Standardized uptake value
IAO_0000111: radioactivity imaging biomarker measurement datum

radioactivity measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000032
  intersection of: Restriction
    on property: IAO_0000039
    some values from: UO_0000319
  intersection of: Restriction
    on property: IAO_0000221
    some values from: PATO_0001739
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: Radioactivity measurement datum is a scalar measurement datum that is the result of measurement of radiation quality. It measures the amount of energy absorbed by biological tissue from ionizing radiation per unit mass.
IAO_0000111: radioactivity measurement datum

rate imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: OBI_0001554
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
IAO_0000115: 'rate imaging biomarker measurement datum' is a 'rate measurement datum' that represents biomarkers that calcualtes the number of
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: rate imaging biomarker measurement datum

ratio measurement datum
type: Class
subclass of: continuous measurement datum
IAO_0000115: 'ratio measurement datum' is a 'continuous measurement datum' that describes is a relationship between two numbers indicating how many times the first number contains the second. This measurement datum summarises two pieces of information, namely their constituent numerator and denominator values. Simple ratios (0 to 1, i.e. the denominator is the maximum possible value that the numerator can take) can be treated as continuous data. More difficult to analyse data arise when the ratio represents a change, and the value can be negative. Ratios of observations compared with reference values, e.g. height relative to the mean of a reference population for a given sex and age, are difficult to handle as values may fall either side of 1 (100%).
IAO_0000112: For example, if a bowl of fruit contains eight oranges and six lemons, then the ratio of oranges to lemons is eight to six (that is, 8:6, which is equivalent to the ratio 4:3). Thus, a ratio can be a fraction as opposed to a whole number. Also, in this example the ratio of lemons to oranges is 6:8 (or 3:4), and the ratio of oranges to the total amount of fruit is 8:14 (or 4:7).
created by: PERSONS: Emna Amdouni and Bernard Gibaud
source: Wikipedia page: https://en.wikipedia.org/wiki/Ratio WEB: http://www.statsdirect.com/help/default.htm#basics/measurement_scales.htm
IAO_0000111: ratio measurement datum

ratio variable
type: Class
subclass of: BFO_0000019
comment: Mathematical parametres that can be computed from this variable are: frequency distribution, median and percentiles, addition or substraction, mean, standard deviation, standard error of the mean, ratio or cofficient of variation.
IAO_0000115: Ratio variable is a quality that is attributed to a variable that the difference between any two measures is meaningful and any two values have a meaningfull ratio, making the operations of multiplication and division meaningful. A ratio variable possesses a meaningful zero value. [VIM]
source: International vocabulary of metrology (VIM)
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: ratio variable

reduction of fractional anisotropy value
type: Class
subclass of: fractional anisotropy value variability
subclass of: Restriction
  on property: BFO_0000133
  some values from: GO_0051211
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: reduction of fractional anisotropy value

regional cerebral blood volume measurement datum
type: Class
subclass of: imaging biomarker volume measurement datum
IAO_0000111: regional cerebral blood volume measurement datum
created by: PERSONS: Emna Amdouni and Bernard Gibaud

regional cerebral blood volume dataset
type: Class
subclass of: parameter quantification dataset
created by: PERSONS: Emna AMDOUNI, Yannick Morvan and Bernard Gibaud
IAO_0000111: regional cerebral blood volume dataset

regional intensity distribution
type: Class
subclass of: intensity distribution
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: regional intensity distribution

relative anisotropy
type: Class
subclass of: PATO_0001241
created by: PERSONS: Emna Amdouni and Bernard Gibaud

response to therapeutic intervention
type: Class
subclass of: therapy monitoring
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: reponse to therapeutic inervention
IAO_0000114: IAO_0000123

restricted label option
type: Class
subclass of: OBI_0000963
subclass of: diffusion characteristics label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: restricted label option

right categorical label option
type: Class
subclass of: side of tumor epicenter label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: right categorical label

scalar imaging biomarker measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000032
  intersection of: Restriction
    on property: OBI_0000312
    some values from: imaging biomarker measurement process
  intersection of: Restriction
    on property: OBI_0000312
    some values from: quantitative image analysis
subclass of: continuous imaging biomarker measurement datum
IAO_0000115: An 'imaging biomarker measurement datum' is a 'scalar measurement datum' that represents imaging biomarker value that refers to quantity consisting of a single real number used to measured magnitude (for example, size).
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000112: lesion size,
IAO_0000111: scalar imaging biomarker measurement datum

set of molecular entities
type: Class
subclass of: BFO_0000040
creation date: 13/01/2016
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: set of molecular entities
IAO_0000114: IAO_0000123

short axis
type: Class
subclass of: PATO_0000122

short axis measurement datum
type: Class
subclass of: imaging biomarker length measurement datum
subclass of: Restriction
  on property: IAO_0000221
  some values from: short axis
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: long axis measurement datum is a scalar measurement datum that represents the measurement result of xxx.
IAO_0000111: short axis measurement datum

side of lesion epicenter VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: side of tumor epicenter value specification
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: VASARI
IAO_0000111: side of lesion epicenter VASARI criteria
IAO_0000115: side of lesion epicenter' is a 'categorical VASARI criteria' that represents the side of lesion epicenter.
IAO_0000114: IAO_0000123

side of tumor epicenter VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: side of tumor epicenter value specification
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: side of lesion epicenter. The possible values are: 0._/ 1.right/ 2.center/ 3.left

side of tumor epicenter label
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: side of lesion epicenter label
IAO_0000114: IAO_0000123

side of tumor epicenter value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: side of tumor epicenter label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: side of tumor epicenter value specification

skewness value
type: Class
subclass of: statistical shape distribution parameter
IAO_0000119: In probability theory and statistics, skewness is a measure of the asymmetry of the probability distribution of a real-valued random variable about its mean. The skewness value can be positive or negative, or even undefined.
source: Wikipedia page
IAO_0000115: a 'skewness value' is a 'statistical shape distribution parameter' that measures the dissimilarity of the grey level histogram (if it is well balanced around its mean or if it is more directed to the left or to the right with regard to its mean). It is a reponse to the question: are the intensities usually darker or lighter than the mean?
source: https://en.wikipedia.org/wiki/Skewness
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: skewness value

slice of interest selection
type: Class
subclass of: Class
  intersection of: OBI_0000011
  intersection of: Restriction
    on property: BFO_0000055
    some values from: Restriction
      on property: RO_0000059
      some values from: OBI_0500000
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
definition: slice of interest selection
IAO_0000115: slice of interest selection represents the step of the user selection of one image, generally it is the most informative image, among other a set of images.
IAO_0000114: IAO_0000123

smooth label option
type: Class
subclass of: OBI_0000963
subclass of: non-enhancing margin definition label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: smooth label option

speech motor label option
type: Class
subclass of: eloquent brain label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: speech motor label option

speech receptive label option
type: Class
subclass of: eloquent brain label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: speech receptive label option

standard deviation value
type: Class
subclass of: statistical dispersion parameter
creation date: 27/11/2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: a 'standard deviation value' is a 'statistical dispersion parameter' that measures the distribution of grey levels around the mean. It manifests region roughness.
IAO_0000111: standard deviation value

statistical dispersion parameter
type: Class
subclass of: descriptive statistic parameter
source: Wikipedia page: https://en.wikipedia.org/wiki/Statistical_dispersion
IAO_0000115: 'statistical dispersion parameter' is a 'descriptive dispersion parameter' that describes a distribution. In statistics, dispersion (also called variability, scatter, or spread) denotes how stretched or squeezed a distribution (theoretical or that underlying a statistical sample) is. Common examples of measures of statistical dispersion are the variance, standard deviation and interquartile range.
comment: Dispersion is contrasted with location or central tendency, and together they are the most used properties of distributions.
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: statistical dispersion parameter

statistical location parameter
type: Class
subclass of: descriptive statistic parameter
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000115: a 'statistical location parameter' is a 'descriptive statistic parameter' that describes a probability distributions that is parametrized by a scalar- or vector-valued parameter x_0, which determines the "location" or shift of the distribution.
source: https://en.wikipedia.org/wiki/Location_parameter
IAO_0000111: statistical location parameter

statistical shape distribution parameter
type: Class
subclass of: descriptive statistic parameter
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: Wikipedia page: https://en.wikipedia.org/wiki/Shape_parameter
IAO_0000115: a 'statistical shape distribution parameter' is any parameter of a probability distribution that is neither a location parameter nor a scale parameter (nor a function of either or both of these only, such as a rate parameter). Such a parameter must affect the shape of a distribution rather than simply shifting it (as a location parameter does) or stretching/shrinking it (as a scale parameter does).
IAO_0000111: statistical shape distribution parameter

statistical variance
type: Class
subclass of: statistical shape distribution parameter
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
IAO_0000111: statistical variance

subject participation role
type: Class
subclass of: BFO_0000023
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: subject participation role

subject preparation
type: Class
subclass of: OBI_0000011
subclass of: Restriction
  on property: OBI_0000293
  some values from: Class
    intersection of: organism
    intersection of: Restriction
      on property: RO_0000087
      some values from: imaging subject role
subclass of: Restriction
  on property: BFO_0000055
  some values from: Restriction
    on property: RO_0000059
    some values from: OBI_0500000
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: subject preparation
IAO_0000115: subject preparation describes the process of patient management in order to enable him to realize a certain medical exam. This process may include: imaging agent administration and injection, patient handling, etc.
IAO_0000114: IAO_0000123

subject preparation protocol
type: Class
subclass of: OBI_0000272
created by: PERSON: Emna Amdouni

sum of the longest diameter
type: Class
subclass of: imaging biomarker length measurement datum
subclass of: Restriction
  on property: IAO_0000039
  some values from: UO_0000001
source: https://en.wikipedia.org/wiki/Response_Evaluation_Criteria_in_Solid_Tumors
IAO_0000115: A sum of the longest diameter (LD) for all target lesions is calculated and reported as the baseline sum LD. The baseline sum LD will be used as reference by which to characterize the objective tumor response.
created by: PERSONS: Emna Amdouni and Bernard Gibaud

sum of the product of the short and long diameters
type: Class
subclass of: imaging biomarker length measurement datum
subclass of: Restriction
  on property: IAO_0000039
  some values from: UO_0000001
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: sum of the product of the short and long diameters

surrogate endpoint imaging biomarker role
type: Class
subclass of: imaging biomarker application role
IAO_0000115: Category markers intended to replace an evaluation criterion clinic designed to determine the clinical benefit or risk from epidemiological, therapeutic or pathophysiological
created by: PERSONS: Emna Amdouni and Bernard Gibaud

survival estimation
type: Class
subclass of: OBI_0302910
subclass of: Prognosis
created by: PERSON: Emna Amdouni and Bernard Gibaud
IAO_0000111: survival estimation

temporal categorical label option
type: Class
subclass of: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: temporal categorical label option

textural features
subclass of: IAO_0000027
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: textural features

texture
type: Class
subclass of: PATO_0001241
IAO_0000111: texture
created by: PERSONS: Emna Amdouni and Bernard Gibaud

thick/solid label option
type: Class
subclass of: OBI_0000963
subclass of: thickness of enhancing margin label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: thick/solid label option

thickness of enhancing margin VASARI criteria
type: Class
subclass of: ordered and categorical imaging biomarker measurement datum
subclass of: Restriction
  on property: OBI_0001938
  some values from: thickness of enhancing margin VASARI criteria
IAO_0000115: 'thickness of enhancing margin VASARI criteria' is an 'ordered and categorical imaging biomarker measurement datum' that describes the enhancing margin. If the enhancing rim is thin, regular and measures < 3 mm in thickness and has homogenous enhancement the grade is thin. If most of the rim demonstrates nodular and/or thick enhancement, the grade is thick. If there is only solid enhancement and no rim, the grade is solid. possible values are 0._/ 1.n/a/ 2.none/ 3.thin/ 4.thick
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
comment: The scoring is not applicable if there is no contrast enhancement.
IAO_0000111: thickness of enhancing margin VASARI criteria

thickness of enhancing margin label option
type: Class
subclass of: OBI_0000963
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: thickness of enhancing margin label option

thickness of enhancing margin value specification
type: Class
subclass of: ordinal categorical value specification
subclass of: Restriction
  on property: OBI_0000999
  some values from: thickness of enhancing margin label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni, Yannick Morvan and Bernard Gibaud
IAO_0000111: thickness of enhancing margin value specification

thin label option
type: Class
subclass of: OBI_0000963
subclass of: thickness of enhancing margin label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: thin label option

three dimension ellipse
type: Class
subclass of: three dimension geometrical shape
source: Annotation Image Markup (AIM) model https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000115: a 'three dimension ellipse' is a 'three dimension geometrical shape' that represents an ellipse defined by four (x,y,z) triplets, the two first triplets specifying the endpoints of the major axis and the second two triplets specifying the endpoints of the minor axis.
IAO_0000111: three dimension ellipse

three dimension ellipsoid
type: Class
subclass of: three dimension geometrical shape
IAO_0000119: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'three dimension ellipsoid' is a 'three dimension geometrical shape' that represents a 'three dimension geometrical shape' that represents a three dimensional geometric surface whose plane sections are either ellipses or circles and contains three intersecting orthogonal axes "a","b" and "c". The ellipsoid is defined by six (x,y,z) triplets, the first and second triplets specifying the endpoints of axis "a", the third and fourth triplets specifying the endpoints of axis "b", and the fifth and sixt triplets specifing the endpoints of axis "c".
IAO_0000111: three dimension ellipsoid

three dimension geometrical shape
type: Class
subclass of: geometrical shape
IAO_0000119: Annotation Image Markup (AIM model): https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000115: a 'three dimension geometric shape' is a 'geometrical shape' which represents three dimension coordinates of a graphical drawing that can be placed on an image to identify a region of interest (ROI).
IAO_0000111: three dimension geometric shape

three dimension multi-point
type: Class
subclass of: three dimension geometrical shape
IAO_0000119: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'three dimension multi-point' is a 'three dimension geometrical shape' that represents a mulile locations each denoed by an (x,y,z) triplet. The points need not be coplanar.
IAO_0000111: three dimension multipoint

three dimension point
type: Class
subclass of: three dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'three dimension point' is a 'three dimension geometrical shape' that represents a single location denoted by a single (x,y,z) triplet.
IAO_0000111: three dimension point

three dimension polygon
type: Class
subclass of: three dimension geometrical shape
IAO_0000119: Annotation Image Markup (AIM model): https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'three dimension polygon' is a 'three dimension geometrical shape' that represents a series of connected line segments with ordered vertices denoted by (x,y,z) triplets, where the first and last vertices shall be the same forming a polygon; the points shall be coplaner.
IAO_0000111: three dimension polygon

three dimension polyline
type: Class
subclass of: three dimension geometrical shape
IAO_0000119: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'three dimension polyline' is a 'three dimension geometrical shape' that represents a series of connected line segments with ordered vertices by (x,y,z) triples, the points need not be coplanar.
IAO_0000111: three dimension polyline

three dimension spatial coordinate
type: Class
subclass of: three dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: three dimension spatial coordinate

total lesion glycolysis
type: Class
subclass of: imaging biomarker activity measurement datum
created by: Emna Amdouni and Bernard Gibaud
IAO_0000115: The total activity of a lesion obtained as the product of its volume and its glycolytic activity (on FDG-PET). The volume may be defined on the same modality (e.g., the MV on FDG-PET) or another spatially registred modality (e.g., the lesion outline segmented on CT or MR). Does not apply to other radiopharmaceuticals than those involved in glucose metabolism.
IAO_0000111: total lesion glycolysis

tumor grading based on imaging biomarker
type: Class
subclass of: OBI_0600002
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: tumor grading based on imaging biomarker

tumor location VASARI criteria
type: Class
subclass of: categorical VASARI criteria
subclass of: Restriction
  on property: OBI_0001938
  some values from: tumor location value specification
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: VASARI
IAO_0000111: tumor location VASARI criteria
IAO_0000115: tumor location' is a 'VASARI criteria' that represents the location of lesion geographic epicenter (not all areas of involvement). possible values are: 0._/ 1.frontal/2.temporal/ 3.insular/ 4.parietal/ 5. occipital/ 6.brainstem/ 7.cerebellum
IAO_0000114: IAO_0000123

tumor location label
type: Class
subclass of: OBI_0000963
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: tumor location label
IAO_0000114: IAO_0000123

tumor location value specification
type: Class
subclass of: OBI_0001930
subclass of: Restriction
  on property: OBI_0000999
  some values from: tumor location label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: tumor location value specification

two dimension circle
type: Class
subclass of: two dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'two dimension circle' is a 'two dimension geometrical shape' that represents a circle that is defined by two (column, row) pairs. The first point is the central pixel. The second is a pixel on the perimeter of the circle.
IAO_0000111: two dimension circle

two dimension ellipse
type: Class
subclass of: two dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'two dimension ellipse' is a 'two dimension geometrical shape' that represents a two dimension ellipse that is defined by four pixel (column, row pairs), the first two points specifying the endpoints of the major axis and the second two points specifying the endpoints of the minor axis of an ellipse.
IAO_0000111: two dimension ellipse

two dimension geometrical shape
type: Class
subclass of: geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
definition: a 'two dimension geometric shape' is a 'geometrical shape' that represents two dimension coordiantes of a graphical drawing that can be placed on an image to identify a region of interest (ROI).
IAO_0000111: two dimension geometric shape

two dimension multi point
type: Class
subclass of: two dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'two dimension multi point' is a 'two dimension geometrical shape' that represents a two dimension geometric shape that represents multiple pixels each denoted by an column, row) pair.
IAO_0000111: two dimension multi point

two dimension point
type: Class
subclass of: two dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'two dimension point' is 'two dimension geometrical shape' that represents a two dimension geometric shape that represents a single point denoted by a single (column, row) pair.
IAO_0000111: two dimension point

two dimension polyline
type: Class
subclass of: two dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'two dimesnion polyline' is a 'two dimension geometrical shape' that represents two dimension polyline that represents a series of connected line segments with ordred vertices denoted by (column, row) pair; if the first and last vertices are the same it is a closed polygon.
IAO_0000111: two dimension polyline

two dimension spatial coordinate
type: Class
subclass of: two dimension geometrical shape
source: Annotation Image Markup (AIM) model: https://wiki.nci.nih.gov/display/AIM/Annotation+and+Image+Markup+-+AIM
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: a 'two dimension spatial coordinate' is a 'two dimension geometrical shape' that represents a two dimension geometric shape that represents the 2D coordinates of the shape.
IAO_0000111: two dimension spatial coordinate

variance value
type: Class
subclass of: statistical shape distribution parameter
creation date: 27/11/2015
created by: PERSONS: Emna Amdouni and Bernrad Gibaud
source: Wikipedia page: https://en.wikipedia.org/wiki/Variance
IAO_0000115: a 'variance value' is a 'statistical shape distribution' that measures how far a set of numbers is spread out. A variance of zero indicates that all the values are identical. Variance is always non-negative: a small variance indicates that the data points tend to be very close to the mean (expected value) and hence to each other, while a high variance indicates that the data points are very spread out around the mean and from each other.
IAO_0000111: variance value

velocity
type: Class
subclass of: PATO_0001241
created by: Emna Amdouni and Bernard Gibaud
comment: this term can be used to represent tissue or flow velocity
IAO_0000111: velocity

velocity measurement datum
type: Class
subclass of: IAO_0000032
creator: PERSON: Emna Amdouni and Bernard Gibaud
IAO_0000111: velocity measurement datum

vision label option
type: Class
subclass of: eloquent brain label
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Giabud
IAO_0000111: vision label option

volume measurement datum
type: Class
equivalent class: Class
  intersection of: IAO_0000032
  intersection of: Restriction
    on property: IAO_0000039
    some values from: UO_0000095
  intersection of: Restriction
    on property: IAO_0000221
    some values from: PATO_0000918
subclass of: IAO_0000032
IAO_0000112: For example the volume of a given tumor, 2.0 cm3 is an imaging biomarker value.
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000115: volume masurement datum is a scalar measurement datum that is the result of measurement of voume quality
IAO_0000111: volume measurement datum

volumetric flow rate measurement datum
type: Class
subclass of: IAO_0000032
subclass of: Restriction
  on property: IAO_0000039
  some values from: UO_0000270
IAO_0000117: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: volumetric flow rate measurement datum
IAO_0000115: volumetric flow rate measurement datum is a scalar measurement datum that is the result of measurement of voumteric flow rate quality

well defined option label
type: Class
subclass of: OBI_0000963
subclass of: enhancing margin definition label option
creation date: 23 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: well defined option label

yes label option
type: Class
subclass of: OBI_0000963
subclass of: cortical involvement label option
subclass of: cyst label
subclass of: deep WM invasion label option
subclass of: edema crosses midline midline label option
subclass of: ependymal invasion label option
subclass of: hemorrhage label option
subclass of: pial invasion label option
creation date: 17 December 2015
created by: PERSONS: Emna Amdouni and Bernard Gibaud
IAO_0000111: yes

ecological validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

discriminant validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

In vitro tissue biopsy
created by: PERSON: Andrew J.Buckler
IAO_0000111: in vitro tissue biopsy
IAO_0000114: IAO_0000120

face validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

rank order value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

magnetization transfer ratio calculation
IAO_0000115: A MAGNETIZATION TRANSFER RATIO CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every MAGNETIZATION TRANSFER RATIO CALCULATION has for data only T1 WEIGHTED MR DATASETS or T2 WEIGHTED MR DATASETS or T2 STAR WEIGHTED MR DATASETS at a TIME INTERVAL. [EP/ER] Every MAGNETIZATION TRANSFER RATIO CALCULATION has for result a MAGNETIZATION TRANSFER RATIO DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

regional cerebral blood flow dataset
version info: 1.1
comment: Cerebral blood flow (represented in milliliters of blood per gram of tissue per minute) can be calculated from diverse measurements, such as a T2 or T2 STAR WEIGHTED DCE MR DATASET, or a SPIN TAGGING PERFUSION MR DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: regional cerebral blood flow dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

skeletonizing
creation date: October 16th, 2008

GO_0005575
IAO_0000111: cellular component

In vitro cell
created by: PERSON: Andrew J.Buckler
IAO_0000119: WEB: http://medical-dictionary.thefreedictionary.com/cell+culture
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000111: in vitro cell
IAO_0000115: in vitro cell is an in vivo subject that represents living cells that are maintained in vitro in artificial media of serum and nutrients for the study and growth of certain strains of microorganisms or for experiments in controlling diseases, such as cancer. They are routinely used to culture viruses that infect patients.
IAO_0000114: IAO_0000120

quantitative T1 dataset
version info: 1.1
IAO_0000115: A QUANTITATIVE T1 DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a QUANTITATIVE T1 ESTIMATION at a TIME INTERVAL. [EP/SL] Every QUANTITATIVE T1 DATASET is an ANATOMICAL DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: T1, also called longitudinal relaxation time (in milliseconds), is an intrinsic biophysical property of the tissue, related to macromolecule concentration, water binding and water content.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
synonym: longitudinal relaxation time (in milliseconds)
IAO_0000111: quantitative T1 dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

relative anisotropy dataset
version info: 1.1
IAO_0000115: A RELATIVE ANISOTROPY DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a RELATIVE ANISOTROPY CALCULATION at a TIME INTERVAL. [EP/SL] Every RELATIVE ANISOTROPY DATASET is an ANATOMICAL DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: relative anisotropy dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

datasets blending
creation date: October 16th, 2008

region based segmentation
IAO_0000115: A REGION BASED SEGMENTATION is a SEGMENTATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

FMA_24491
IAO_0000111: tarsal bone

thinning
creation date: October 16th, 2008

resolution modification
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

multi-modality non affine registration
IAO_0000115: A MULTI MODALITY NON-AFFINE REGISTRATION is a NON-AFFINE REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

Ex vivo bodily substance
created by: PERSON: Andrew J.Buckler
IAO_0000111: ex vivo bodily substance
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000114: IAO_0000120

T1 weighted MR dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
IAO_0000115: A T1 WEIGHTED MR DATASET is a MR DATASET. [EP/SL] Every T1 WEIGHTED MR DATASET is an ANATOMICAL DATASET. [EP/SL] Every T1 WEIGHTED MR DATASET is a RECONSTRUCTED DATASET.
creation date: September 30th, 2008
IAO_0000111: T1 weighted MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

T2 star weighted DCE-MR dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
IAO_0000115: A T2 STAR WEIGHTED DCE MR DATASET is a DYNAMIC CONTRAST-ENHANCED MR DATASET.
comment: A T2 and T2 STAR WEIGHTED DCE MR DATASET reflects the T2 and T2 STAR of tissue decrease as the Gd contrast agent bolus passes through the brain. From the changes along time reflecting how the Gd contrast agent bolus passes through the brain, it is possible to estimate the cerebral blood flow (represented in milliliters of blood per gram of tissue per minute) as well as the cerebral blood volume (represented in milliliters of blood per gram of tissue). However, absolute quantification of perfusion is unreliable since the arterial input function is not well characterized and the relaxivity is unknown.
creation date: September 30th, 2008
IAO_0000111: T2 star weighted DCE-MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

proton density weighted MR template dataset
version info: 1.1
IAO_0000115: A PROTON DENSITY WEIGHTED MR TEMPLATE DATASET is a PROTON DENSITY WEIGHTED MR DATASET which is a TEMPLATE DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
comment: All images have intensity proportional to proton density. Images with very little T1 or T2 weighting are called ‘PD-weighted’.
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: proton density weighted MR template dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

FMA_24496
IAO_0000111: calcaneus

diffusion tensor calculation
IAO_0000115: A DIFFUSION TENSOR CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every DIFFUSION TENSOR CALCULATION has for data only a DIFFUSION WEIGHTED MR DATASET at a TIME INTERVAL. [EP/ER] Every DIFFUSION TENSOR CALCULATION has for result a DIFFUSION TENSOR DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

FMA_24901
IAO_0000111: elbow

representation validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

metabolite concentration ratio estimation
IAO_0000115: A METABOLITE CONCENTRATION RATIO ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every METABOLITE CONCENTRATION RATIO ESTIMATION has for data only a SPECTROSCOPIC IMAGING DATASET at a TIME INTERVAL. [EP/ER] Every METABOLITE CONCENTRATION RATIO ESTIMATION has for result a METABOLITE CONCENTRATION RATIO DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

velocity encoded angio MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: Spins that are moving in the same direction as a magnetic field gradient develop a phase shift that is proportional to the velocity of the spins. This is the basis of phase-contrast angiography. Phase-contrast pulse sequence is used to encode the velocity of the spins. Stationary spins undergo no net change in phase after the two gradients are applied. Moving spins will experience a different magnitude of the second gradient compared to the first, because of its different spatial position. This results in a net phase shift. This information can be used directly to determine the velocity of the spins. Alternatively, the image can be subtracted from one acquired without the velocity encoding gradients to obtain an angiogram.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: velocity encoded angio MR dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

convolution
creation date: October 16th, 2008

mean calculation
IAO_0000111: mean calculation

FMA 7474
IAO_0000111: long bone

OBI_0000398
IAO_0000111: image creation device

smoothing
creation date: October 16th, 2008

FMA 7148
IAO_0000111: stomach

closing
creation date: October 16th, 2008

structured mesh-generation
creation date: October 16th, 2008

FMA_231430
IAO_0000111: subdivision of body proper

convergent validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

FMA 7088
IAO_0000111: heart

multi-modality rigid coregistration
IAO_0000115: A MULTI MODALITY RIGID COREGISTRATION is a RIGID REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

wavelet transformation
creation date: October 16th, 2008

cropping
comment: A CROPPING is a resampling that affects only the domain of the mathematical function associated to the dataset “to be cropped”, by defining a subset of this domain, more precisely by reducing the number of samples and changing the upper and lower limit of one or more intervals of this domain. The values taken by the function associated to the dataset are not changed.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

non reconstructed dataset
version info: 1.1
comment: A NON-RECONSTRUCTED DATASET provides measurements that do not relate to a precise 3D location, such as measurements in Fourier space, or integration along a projection line (e.g. projection image in SPECT or CT). In contrast, a RECONTRUCTED DATASET provides a measurement of a quality of the explored object (e.g. brain tissues) at well-identified locations in 3D space, usually organized as a 2D and 3D regular sampling grid.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: non reconstructed dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

content validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

FMA 5018
IAO_0000111: bone organ

Biological macromolecule
IAO_0000115: A macromolecule is a very large molecule commonly created by polymerization of smaller subunits (monomers). They are typically composed of thousands or more atoms. The most common macromolecules in biochemistry are biopolymers (nucleic acids, proteins, carbohydrates and polyphenols) and large non-polymeric molecules (such as lipids and macrocycles).Synthetic macromolecules include common plastics and synthetic fibres as well as experimental materials such as carbon nanotubes.
created by: PERSON: Andrew J.Buckler
IAO_0000119: Wikipedia page: https://en.wikipedia.org/wiki/Macromolecule
IAO_0000111: biological macromolecule
IAO_0000412: http://purl.bioontology.org/ontology/QIBO

H1 MR spectroscopy dataset
version info: 1.1
IAO_0000115: A H1 MR SPECTROSCOPY DATASET is a MR SPECTROSCOPY DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: H1 MR spectroscopy dataset
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

CHEBI_37336
definition: A radioactive imaging agent is a chemical compound in which one or more atoms have been replaced by a radioisotope so by virtue of its radioactive decay it can be used to explore the mechanism of chemical reactions by tracing the path that the radioisotope follows from reactants to products. Radiolabeling is thus the radioactive form of isotopic labeling.
IAO_0000119: WEB: https://en.wikipedia.org/wiki/Radioactive_tracer
IAO_0000111: radioactive imaging agent
IAO_0000118: radioactive tracer or radioactive label

CHEBI_37337
synonym: Contrast-enhanced ultrasound

mono-modality affine non regid registration
IAO_0000115: A MONO MODALITY AFFINE NON-RIGID REGISTRATION is an AFFINE NON-RIGID REGISTRATION.
comment: A MONO MODALITY AFFINE NON-RIGID REGISTRATION is an affine registration which estimates an affine but non-rigid geometrical transformation, in which the reference and the floating image have the same modality, which means that they represent the same kind of information, e.g. a T1-weighted MR signal.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

absolute metabolite concentration estimation
IAO_0000115: An ABSOLUTE METABOLITE CONCENTRATION ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every ABSOLUTE METABOLITE CONCENTRATION ESTIMATION has for data only a H1 CHEMICAL SHIFT IMAGING DATASET at a TIME INTERVAL. [EP/ER] Every ABSOLUTE METABOLITE CONCENTRATION ESTIMATION has for result an ABSOLUTE METABOLITE CONCENTRATION DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

OGMS_0000074
IAO_0000111: normal value

bias correction
comment: A BIAS-CORRECTION is a RESTORATION that focuses on the compensation of bias.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

affine registration
IAO_0000115: An AFFINE REGISTRATION, or LINEAR REGISTRATION, is a REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

Dextran
created by: PERSON: Andrew J.Buckler
IAO_0000111: dextran

Fab
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

diffusion weighted MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000115: A DIFFUSION WEIGHTED MR DATASET is a MR DATASET. [EP/SL] Every DIFFUSION WEIGHTED MR DATASET is an ANATOMICAL DATASET. [EP/SL] Every DIFFUSION WEIGHTED MR DATASET is a RECONSTRUCTED DATASET.
creation date: September 30th, 2008
comment: The Stejskal-Tanner imaging sequence is used to exploit diffusion of water molecules. Tissues with highly mobile water, such as cerebrospinal fluid (CSF) (strong diffusion) appear dark on images acquired in the presence of strong diffusion gradients, reflecting the dephasing of the contributing spins. A diffusion map can be calculated by combining at least two diffusion-weighted images that are differently sensitized to diffusion but remain identical with respect to the other parameters, spin density, T1, T2, TR, and TE. By using, for instance, the image S0 without diffusion weighting (b=0) and one diffusion-weighted image (b > 0), we can calculate a D value for each pixel. A parametric image containing these data is called a diffusion map or apparent diffusion map (ADC). The latter term emphasizes the fact that the D values obtained with this procedure depend on the experimental conditions (eg, direction of the sensitizing gradient and diffusion time delta).
IAO_0000111: diffusion weighted MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

affine non rigid registration
IAO_0000115: An AFFINE NON-RIGID REGISTRATION is an AFFINE REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

filtering
creation date: October 16th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

mesh-generation
creation date: October 16th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

qunatitative T2 star estimation
IAO_0000115: A QUANTITATIVE T2 STAR CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [EP/ER] Every QUANTITATIVE T2 STAR ESTIMATION has for data at least two T2 STAR WEIGHTED MR DATASET at a TIME INTERVAL. [EP/ER] Every QUANTITATIVE T2 STAR ESTIMATION has for result a QUANTITATIVE T2 STAR DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

mean diffusivity dataset
version info: 1.1
IAO_0000115: A MEAN DIFFUSIVITY DATASET is PARAMETER QUANTIFICATION DATASET which is a result of a MEAN DIFFUSIVITY CALCULATION at a TIME INTERVAL. [EP/SL] Every MEAN DIFFUSIVITY DATASET is an ANATOMICAL DATASET
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: The mean diffusivity is the average value of the diffusion coefficients at this voxel. This can be estimated by the average of the eigen values of the diffusion tensor.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: mean diffusivity dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

Nucleic Acid
created by: PERSON: Andrew J.Buckler
IAO_0000111: nucleic acid

predictive validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

T2 weighted template dataset
version info: 1.1
IAO_0000115: A T2 WEIGHTED MR TEMPLATE DATASET is a T2 WEIGHTED MR DATASET which is a TEMPLATE DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: T2 weighted template dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

proton density weighted MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000115: A PROTON DENSITY WEIGHTED MR DATASET is a MR DATASET. [EP/SL] Every PROTON DENSITY WEIGHTED MR DATASET is an ANATOMICAL DATASET. [EP/SL] Every PROTON DENSITY WEIGHTED MR DATASET is a RECONSTRUCTED DATASET.
comment: All images have intensity proportional to proton density. Images with very little T1 or T2 weighting are called ‘PD-weighted’.
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: proton density weighted MR dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

mesh dataset
version info: 1.1
IAO_0000115: A MESH DATASET is a DATASET which is a result of a MESH GENERATION at a TIME INTERVAL.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: mesh dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

voxel displacement map datset
version info: 1.1
IAO_0000115: A VOXEL DISPLACEMENT MAP DATASET is a CALIBRATION DATASET which is a result of a VOXEL DISPLACEMENT MAP ESTIMATION at a TIME INTERVAL.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: voxel displacement map dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

regional cerebral blood flow estimation
IAO_0000115: A REGIONAL CEREBRAL BLOOD FLOW ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EER] Every REGIONAL CEREBRAL BLOOD FLOW ESTIMATION has for data a T2 WEIGHTED DCE MR DATASET or a T2 STAR WEIGHTED DCE MR DATASET or a SPIN TAGGING PERFUSION MR DATASET at a TIME INTERVAL. [EP/ER] Every REGIONAL CEREBRAL BLOOD FLOW ESTIMATION has for result a REGIONAL CEREBRAL BLOOD FLOW DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

FMA 7155
IAO_0000111: neck

REO_0000171
comment: A role played by a part of a molecular entity distinguishable by the observer but not by the system and used to identify a tracer. [CHEBI ontology]

brain segmentation
IAO_0000117: A TISSUES SEGMENTATION is a SEGMENTATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

regional cerebral blood volume dataset
version info: 1.1
comment: Cerebral blood volume (represented in milliliters of blood per gram of tissue) can be calculated from diverse measurements, such as a T2 or T2 STAR WEIGHTED DCE MR DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: regional cerebral blood volume dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA_50801
IAO_0000111: brain

distance transform processing
creation date: October 16th, 2008

nuclear medicine projection dataset
version info: 1.1
IAO_0000115: A NUCLEAR MEDICINE PROJECTION DATASET is a SPECT DATASET. [EP/SL] Every NUCLEAR MEDICINE PROJECTION DATASET is a METABOLIC DATASET. [EP/SL] Every NUCLEAR MEDICINE PROJECTION DATASET is a NON-RECONSTRUCTED DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: nuclear medicine projection datset
IAO_0000412: particular
IAO_0000114: IAO_0000120

statistical dataset
version info: 1.1
IAO_0000115: A STATISTICAL DATASET is a DATASET which is a result of a DATASET STATISTICAL ANALYSIS at a TIME INTERVAL. [CP/EER] Every STATISTICAL DATASET can be superimposed with another RECONSTRUCTED DATASET or SEGMENTATION DATASET or STATISTICAL DATASET or PARAMETER QUANTIFICATION DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: statistical dataset
IAO_0000412: particular

T2 weighted MR dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
IAO_0000115: A T2 WEIGHTED MR DATASET is a MR DATASET. [EP/SL] Every T2 WEIGHTED MR DATASET is an ANATOMICAL DATASET. [EP/SL] Every T2 WEIGHTED MR DATASET is a RECONSTRUCTED DATASET.
creation date: September 30th, 2008
IAO_0000111: T2 weighted MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

Ex vivo cells
created by: PERSON: Andrew J.Buckler
IAO_0000111: ex vivo cells
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000114: IAO_0000120

dynamic contrast enhanced MR dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
comment: A DYNAMIC CONTRAST-ENHANCED MR DATASET reflects the dynamics of exogenous extracellular contrast media.
creation date: September 30th, 2008
IAO_0000111: dynamic contrast enhanced MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

reconstructed dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: reconstructed dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

thickening
creation date: October 16th, 2008

dataset transformation
creation date: October 16th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

regional mean transit time calculation
IAO_0000115: A REGIONAL MEAN TRANSIT TIME CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/ER] Every REGIONAL MEAN TRANSIT TIME CALCULATION has for data exactly one REGIONAL CEREBRAL BLOOD VOLUME DATASET at a TIME INTERVAL. [CP/EVR] Every REGIONAL MEAN TRANSIT TIME CALCULATION has for data exactly one REGIONAL CEREBRAL BLOOD FLOW DATASET at a TIME INTERVAL. [EP/ER] Every REGIONAL MEAN TRANSIT TIME CALCULATION has for result a REGIONAL MEAN TRANSIT TIME DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

quantitative T2 dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000115: QUANTITATIVE T2 DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a QUANTITATIVE T2 ESTIMATION at a TIME INTERVAL.
creation date: September 30th, 2008
comment: T2, also called transverse relaxation time (in milliseconds), is an intrinsic biophysical property of the tissues, also related to the bulk water content of the tissue.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: quantitative T2 dataset
synonym: transverse relaxation time (in milliseconds)
IAO_0000412: particular
IAO_0000114: IAO_0000120

OGMS_0000045
IAO_0000111: disorder

SPECT dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: SPECT dataset
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

absolute proton density estimation
IAO_0000115: An ABSOLUTE PROTON DENSITY ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [EP/ER] Every ABSOLUTE PROTON DENSITY ESTIMATION has for data at least two PROTON DENSITY WEIGHTED MR DATASET at a TIME INTERVAL. [EP/ER] Every ABSOLUTE PROTON DENSITY ESTIMATION has for result an ABSOLUTE PROTON DENSITY DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
comment: The specific procedure that leads to the quantitative estimation of the proton density defined tissue or structure.
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

specificity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

Albumin
created by: PERSON: Andrew J.Buckler
IAO_0000111: albumin

voxel displacement map claculation
creation date: October 16th, 2008

T2 weighted DCE-MR dataset
version info: 1.1
IAO_0000115: A T1 WEIGHTED DCE MR DATASET is a DYNAMIC CONTRAST-ENHANCED MR DATASET.
comment: A T1 WEIGHTED DCE MR DATASET reflects the dynamics of diffusion of the exogenous contrast media from the blood pool into the extra vascular extracellular space (EES) of the brain at a rate determined by the blood flow to the tissue, the permeability of the Brain Blood Barrier (BBB), and the surface area of the perfusing vessels.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: T2 weighted DCE-MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

boundary surface based segmentation
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

quantitative T2 star dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
IAO_0000115: A QUANTITATIVE T2 DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a QUANTITATIVE T2 ESTIMATION at a TIME INTERVAL.
creation date: September 30th, 2008
comment: T2, also called transverse relaxation time (in milliseconds), is an intrinsic biophysical property of the tissues, also related to the bulk water content of the tissue.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: quantitative T2 star dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

MEG dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: MEG dataset
comment: Magneto encephalography (MEG) is an imaging technique used to measure the magnetic fields produced by electrical activity in the brain via extremely sensitive devices such as superconducting quantum interference devices (SQUIDs).
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

reference dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: reference dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

blood oxygen level dependent signal changes estimation
IAO_0000115: A BLOOD OXYGEN LEVEL DEPENDENT SIGNAL CHANGES ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every BLOOD OXYGEN LEVEL DEPENDENT SIGNAL CHANGES ESTIMATION has for data only a T2 STAR WEIGHTED MR DATASET at a TIME INTERVAL. [EP/ER] Every BLOOD OXYGEN LEVEL DEPENDENT SIGNAL CHANGES ESTIMATION has for result a BOLD DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

Carbohydrate
created by: PERSON: Andrew J.Buckler
IAO_0000111: carbohydrate

spin tagging perfusion MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: Spin tagging is a technique of measurement of blood perfusion, based on magnetically labeled arterial blood water as an endogenous tracer. SPIN TAGGING PERFUSION MR allows to obtain absolute values of perfusion of brain tissue by blood (cerebral blood flow) in ml blood/g tissue/ min.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: spin tagging perfusion MR dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

Minibody
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

T1 weighted MR template dataset
version info: 1.1
IAO_0000115: A T1 WEIGHTED MR TEMPLATE DATASET is a T1 WEIGHTED MR DATASET which is a TEMPLATE DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: T1 weighted template dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

metabolic dataset
version info: 1.1
IAO_0000115: A METABOLIC DATASET is a DATASET which explores a brain metabolic process.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: metabolic dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

field map dataset
version info: 1.1
IAO_0000115: A FIELD MAP DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a FIELD MAP ESTIMATION at a TIME INTERVAL. [EP/SL] Every FIELD MAP DATASET is a CALIBRATION DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: field map dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

photoactivatable imaging agent
created by: PERSONS: Emna Amdouni, Yannick Morvan and Bernard Giabud
IAO_0000111: photoactivatable imaging agent

Antibody
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

DNA
IAO_0000111: DNA__
created by: PERSON: Andrew J.Buckler

registration dataset
version info: 1.1
IAO_0000117: A REGISTRATION DATASET is a DATASET which is a result of a REGISTRATION at a TIME INTERVAL.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: registration dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

magnetic field quality dataset
version info: 1.1
comment: A MAGNETIC FIELD QUALITY DATASET is an MR DATASET acquired to measure the non-uniformity of the static magnetic field B0 and linearity of its gradients, or to measure the radiofrequency field inhomogeneities. Such DATASETS are used to create FIELD MAP DATASETS and VOXEL DISPLACEMENT MAPS (which are CALIBRATION DATASETS) that are used to correct the deformation induced by those inhomogeneities.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: magnetic field quality dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA 9577
IAO_0000111: abdomen

FMA 9578
IAO_0000111: pelvis

relative risk value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

boundary surface and region based segmentation
IAO_0000115: A BOUNDARY SURFACE AND REGION BASED SEGMENTATION is a SEGMENTATION.
IAO_0000115: A BOUNDARY SURFACE BASED SEGMENTATION is a SEGMENTATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

denoising
comment: A DENOISING is a RESTORATION that focuses on the compensation of noise.
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

magnetization transfer ratio dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: The Magnetization Transfer Ratio may be defined as MTR=100x(M0-Ms)/M0 pu, where M0 represents the signal measured in absence of saturation, and Ms the signal in the presence of saturation applied to the bound proton pool. It is expressed as percentage units (pu). A magnetization transfer ratio dataset “gives an indication of the quantity of bound protons present in tissue; it is reduced in many pathologies, particularly de-myelinisation, and provides different information from conventional parameters such as T2”. (Tofts, 2004).
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: magnetization transfer ratio dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

quantitative T1 estimation
IAO_0000115: A QUANTITATIVE T1 ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [EP/ER] Every QUANTITATIVE T1 ESTIMATION has for data at least two T1 WEIGHTED MR DATASET at a TIME INTERVAL. [EP/ER] Every QUANTITATIVE T1 ESTIMATION has for result a QUANTITATIVE T1 DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

Oligonucleotide
created by: PERSON: Andrew J.Buckler
IAO_0000111: oligonucleotide

magnetic field quality dataset long-echo-time
version info: 1.1
IAO_0000115: A MAGNETIC FIELD QUALITY DATASET LONG ECHO TIME is a MAGNETIC FIELD QUALITY DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: magnetic field quality dataset long echo time
IAO_0000412: particular
IAO_0000114: IAO_0000120

PET dataset
version info: 1.1
comment: A PET DATASET is a DATASET which is the result of either a PET DATASET ACQUISITION or a DATASET PROCESSING which processes a PET DATASET as data and keeps the same nature to the DATASET result.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: PET dataset
IAO_0000117: POSITRON EMISSION TOMOGRAPHY (PET) is a nuclear medicine imaging method similar to computed tomography, except that the image shows the tissue concentration of a positron-emitting radioisotope.
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA 7197
IAO_0000111: liver

FMA 7198
IAO_0000111: pancreas

time of flight angio MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: Time-of-flight (TOF) is based on the phenomenon of flow-related enhancement of spins entering into an imaging slice. As a result of being unsaturated, these spins give more signal that surrounding stationary spins. With 2-D TOF, multiple thin imaging slices are acquired with a flow-compensated gradient-echo sequence. These images can be combined by using a technique of reconstruction such as maximum intensity projection (MIP), to obtain a 3-D image of the vessels analogous to conventional angiography. With 3-D TOF, a volume of images is obtained simultaneously by phase-encoding in the slice-select direction.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: time of flight angio MR dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

scFv
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

opening
creation date: October 16th, 2008

FMA_66464
IAO_0000111: systemic artery

erosion
creation date: October 16th, 2008

FMA_14515
IAO_0000111: hepatocyte

multiple subjects template dataset
version info: 1.1
IAO_0000115: A MULTIPLE SUBJECTS TEMPLATE DATASET is a TEMPLATE DATASET which is a MULTIPLE SUBJECTS DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: multiple subjects template dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

statistical conclusion validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

datasets logical operation
creation date: October 16th, 2008

In vitro primary cell
created by: PERSON: Andrew J.Buckler
IAO_0000111: in vitro primary cell
IAO_0000114: IAO_0000120

FMA_24816
IAO_0000111: anterior chest

dilation
creation date: October 16th, 2008

intensity normalization
comment: An INTENSITY MODIFICATION is a resampling that affects only the range of the values taken by the mathematical function associated to the dataset “to be intensity-normalized”. Examples are: Bias field correction (with respect to an estimated bias); Histogram equalization; Intensity normalization (with respect to a reference); Image contrast adjustment (window / level); Image inversion.
IAO_0000117: An INTENSITY NORMALIZATION is a RESAMPLING.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

low pass filtering
creation date: October 16th, 2008

floating dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
comment: A DATASET is used as a FLOATING DATASET in the context of a Registration Data Processing. During the registration, the FLOATING DATASET (also called source) is resampled in the sampling grid provided by the REFERENCE DATASET.
creation date: September 30th, 2008
IAO_0000111: floating dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

high pass filtering
creation date: October 16th, 2008

restoration
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: medical image restoration

Antibody Fragment
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

bload dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
creation date: September 30th, 2008
IAO_0000111: bload dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

coefficient of variation calculation
IAO_0000111: coefficient of variation calculation

Cell line
IAO_0000115: 'cell line' is an 'in vitro cell' that represents cells that grow in the first or later subculture from a primary culture.
created by: PERSON: Andrew J.Buckler
IAO_0000111: cell line
source: http://medical-dictionary.thefreedictionary.com/cell+line
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000114: IAO_0000120

registration
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: medical image registration

datasets division
creation date: October 16th, 2008

OBCS_0000159
comment: We have added the term value to the name of this entity that is extracted from OBCS.

reorientation
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: REORIENTATION is a RESAMPLING
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

standard deviation calculation
IAO_0000111: standard deviation calculation

diffusion tensor dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
IAO_0000115: A DIFFUSION TENSOR DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a DIFFUSION TENSOR CALCULATION at a TIME INTERVAL. [EP/SL] Every DIFFUSION TENSOR DATASET is an ANATOMICAL DATASET.
creation date: September 30th, 2008
comment: The DIFFUSION TENSOR DATASET reflects the directional dependence of the diffusion properties, independently of the orientation of the tissue with respect to the directions of measurements. D is calculated from a non diffusion-weighted image plus six or more diffusion-weighted measurements along non collinear directions.
IAO_0000111: diffusion tensor dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

Polysaccharide
created by: PERSON: Andrew J.Buckler
IAO_0000111: polysaccharide

reliability value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

Lipid Microbubble
IAO_0000111: Lipid Microbubble
created by: PERSON: Andrew J.Buckler

magnetic field quality dataset short echo-time
version info: 1.1
IAO_0000115: A MAGNETIC FIELD QUALITY DATASET SHORT ECHO TIME is a MAGNETIC FIELD QUALITY DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: magnetic field quality dataset short echo time
IAO_0000412: particular
IAO_0000114: IAO_0000120

odds ratio value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

field map estimation
IAO_0000115: A FIELD MAP ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [EP/SL] A FIELD MAP ESTIMATION is a CALIBRATION MODEL ESTIMATION. [CP/ER] Every FIELD MAP ESTIMATION has for data exactly one MAGNETIC FIELD QUALITY DATASET LONG ECHO TIME at a TIME INTERVAL. [CP/ER] Every FIELD MAP ESTIMATION has for data exactly one MAGNETIC FIELD QUALITY DATASET SHORT ECHO TIME at a TIME INTERVAL. [EP/ER] Every FIELD MAP ESTIMATION has for result a FIELD MAP DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

OBCS_0000160
comment: We have added the term value to the name of this entity that is extracted from OBCS.

contrast agent angio MR dataset
version info: 1.1
IAO_0000115: A CONTRAST AGENT ANGIO MR DATASET is a MR DATASET. [EP/SL] Every CONTRAST AGENT ANGIO MR DATASET is a HEMODYNAMIC DATASET. [EP/SL] Every CONTRAST AGENT ANGIO MR DATASET is a RECONSTRUCTED DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: contrast agent angio MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

anatomical dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
version info: 1.1
IAO_0000115: An ANATOMICAL DATASET is a DATASET which explores a brain anatomical structure.
creation date: September 30th, 2008
IAO_0000111: anatomical dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

mathematical morphology filtering
creation date: October 16th, 2008

Proteins and Polypeptide
created by: PERSON: Andrew J.Buckler
IAO_0000111: proteins and polypeptide

bias field estimation
creation date: October 16th, 2008

OBCS_0000092
synonym: ordinal scale

FMA_84189
IAO_0000111: mononuclear phagocyte system

OBCS_0000091
synonym: nominal scale

Affibody
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

OBCS_0000093
synonym: ratio scale

FMA_13321
IAO_0000111: clavicle

H1 chemical shift imaging dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: H1 chemical shift imaging dataset
creation date: September 30th, 2008
IAO_0000115: an H1 CHEMICAL SHIFT IMAGING DATASET is an H1 MR SPECTROSCOPY DATASET.
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA_259102
IAO_0000111: subdivision of trunck proper

datasets subtraction
creation date: October 16th, 2008

single subject template dataset
version info: 1.1
IAO_0000115: A SINGLE SUBJECT TEMPLATE DATASET is a TEMPLATE DATASET which is a SINGLE SUBJECT DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: single subject template dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

dataset arithmetical operation
creation date: October 16th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

MR spectroscopy dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: MR spectroscopy dataset
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

functional dataset
version info: 1.1
IAO_0000115: A DATASET is used as a FLOATING DATASET in the context of a Registration Data Processing. During the registration, the FLOATING DATASET (also called source) is resampled in the sampling grid provided by the REFERENCE DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: functional dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

EEG dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: EEG dataset
synonym: Electro encephalography (EEG)
version info: 1.1
IAO_0000115: An EEG DATASET is a DATASET which is the result of either an EEG DATASET ACQUISITION or a DATASET PROCESSING which processes an EEG DATASET as data and keeps the same nature to the DATASET result.
comment: Electro encephalography (EEG) is the measurement of electrical activity produced by the brain as recorded from electrodes placed on the scalp.
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

Transduced cell
IAO_0000115: 'transduced cell' is a 'cell line' that is caused by a transduction. A transduction is the process by which DNA is transferred from one bacterium to another by a virus. It also refers to the process whereby foreign DNA is introduced into another cell via a viral vector.
created by: PERSON: Andrew J.Buckler
source: Wikipedia page: https://en.wikipedia.org/wiki/Transduction_(genetics)
IAO_0000111: transducted cell
IAO_0000114: IAO_0000120

Lipid
created by: PERSON: Andrew J.Buckler
IAO_0000111: lipid

non affine registration
IAO_0000115: A NON-AFFINE REGISTRATION, or NON-LINEAR REGISTRATION, is a REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

datasets multiplication
creation date: October 16th, 2008

experimental validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

FMA 7203
IAO_0000111: kidney

FMA_20358
IAO_0000111: subdivision of thorax

nuclear medicine tomo dataset
version info: 1.1
IAO_0000115: A NUCLEAR MEDICINE TOMO DATASET is a SPECT DATASET. [EP/SL] Every NUCLEAR MEDICINE TOMO DATASET is a METABOLIC DATASET. [EP/SL] Every NUCLEAR MEDICINE TOMO DATASET is a RECONSTRUCTED DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: nuclear medicine tomo dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA_24974
IAO_0000111: knee

H1 single voxel spectroscopy dataset
version info: 1.1
IAO_0000115: A H1 SINGLE VOXEL SPECTROSCOPY DATASET is an H1 MR SPECTROSCOPY DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000111: H1 single voxel spectroscopy dataset
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

unstructured mesh-generation
creation date: October 16th, 2008

FMA_256237
IAO_0000111: segment of neuraxis

tissues segmentation
comment: A tissues segmentation is a segmentation that extracts the tissues such as grey matter, white matter, cerebro-spinal fluid.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

internal validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

mono-modality non affine registration
IAO_0000115: A MONO MODALITY NON-AFFINE REGISTRATION is a NON-AFFINE REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

Disease diagnostic
IAO_0000111: disease diagnostic

quality procedure dataset
version info: 1.1
comment: A QUALITY PROCEDURE DATASET is a DATASET which was acquired to assess the quality of the data produced by a piece of imaging equipment. It may also be used to produce a CALIBRATION DATASET. For example, a phantom may be scanned to measure spatial scaling.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: quality procedure dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

central tendency value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

multi-modality affine non rigid registration
IAO_0000115: A MULTI MODALITY AFFINE NON-RIGID REGISTRATION is an AFFINE NON-RIGID REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

regional cerebral blood volume estimation
IAO_0000115: A REGIONAL CEREBRAL BLOOD VOLUME ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EER] Every REGIONAL CEREBRAL BLOOD VOLUME ESTIMATION has for data a T2 WEIGHTED DCE MR DATASET or a T2 STAR WEIGHTED DCE MR at a TIME INTERVAL. [EP/ER] Every REGIONAL CEREBRAL BLOOD VOLUME ESTIMATION has for result a REGIONAL CEREBRAL BLOOD VOLUME DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

mono modality rigid registration
IAO_0000115: A mono modality rigid registration is a rigid registration in which the reference and the floating image have the same modality, which means that they represent the same kind of information, e.g. a T1-weighted MR signal.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

FMA 9611
IAO_0000111: femur

FMA_61478
IAO_0000111: region of pectoral part of chest

distortion correction
comment: A DISTORTION-CORRECTION is a RESTORATION that focuses on the compensation of a distortion, based on a calibration model.
IAO_0000115: A DISTORTION-CORRECTION is a RESTORATION. [EP/SL] Every DISTORTION-CORRECTION is a CALIBRATION MODEL APPLICATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

CT dataset
synonym: COMPUTED TOMOGRAPHY (CT)
version info: 1.1
comment: COMPUTED TOMOGRAPHY (CT) is an imaging method in which a cross-sectional image of the structures in a body plane is reconstructed by a computer program from the x-ray absorption of beams projected through the body in the image plane.
IAO_0000111: CT dataset
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

outlier value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

test validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

dataset addition
creation date: October 16th, 2008

lesion segmentation
comment: A lesion segmentation is a segmentation that extracts structures such as tumours, or multiple sclerosis white matter lesions.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

metabolite concentration ratio dataset
version info: 1.1
IAO_0000115: A METABOLITE CONCENTRATION RATIO DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of a METABOLITE CONCENTRATION RATIO ESTIMATION at a TIME INTERVAL. [EP/SL] Every METABOLITE CONCENTRATION RATIO DATASET is a METABOLIC DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: metabolite concentration ratio dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

fourrier transformation
creation date: October 16th, 2008

FMA 9607
IAO_0000111: thymus

T1 weighted DCE-MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: T1 weighted DCE-MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA 9604
IAO_0000111: adrenal gland

Glycosaminoglycan
created by: PERSON: Andrew J.Buckler
IAO_0000111: glycosaminoglycan

OBCS_0000011
synonym: measurement scale

construct validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

FMA 9601
IAO_0000111: breast

calibration model estimation
creation date: October 16th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

Ex vivo tissue biopsy
IAO_0000115: An ex vivo tissue biopsy is an ex vivo subject that represents an amount of tissue that is removed by the doctor in order to be studied.
created by: PERSON: Andrew J.Buckler
IAO_0000111: ex vivo tissue biopsy
IAO_0000412: http://purl.bioontology.org/ontology/QIBO
IAO_0000114: IAO_0000120

relative anisostropy calculation
IAO_0000115: A RELATIVE ANISOTROPY CALCULATION is a QUANTITATIVE PARAMETER ESTIMATION. [CP/EVR] Every RELATIVE ANISOTROPY CALCULATION has for data only a DIFFUSION TENSOR DATASET at a TIME INTERVAL. [EP/ER] Every RELATIVE ANISOTROPY CALCULATION has for result a RELATIVE ANISOTROPY DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

calibration dataset
version info: 1.1
comment: A CALIBRATION DATASET serves for calibration purposes. It represents a model that enables to transform non-calibrated data into calibrated data. For instance, in MR, a Field Map can be acquired for estimating the modification of the field B0 (Static Magnetic Field) or B1 (Radiofrequency Transmit Field) induced by the presence of the subject (i.e. the magnetic susceptibility of the tissues). From this data (called Magnetic Field Quality datasets) a transformation may be computed in order to compensate for this non-uniformity of the field: this transformation is a CALIBRATION DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: calibration dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

external validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

absolute metabolite concentration dataset
version info: 1.1
IAO_0000115: An ABSOLUTE METABOLITE CONCENTRATION DATASET is a PARAMETER QUANTIFICATION DATASET which is a result of an ABSOLUTE METABOLITE CONCENTRATION ESTIMATION at a TIME INTERVAL. [EP/SL] Every ABSOLUTE METABOLITE CONCENTRATION DATASET is a METABOLIC DATASET.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: absolute metabolite concentration dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

regional mean transit time dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: The regional mean transit time, rMTT, is the average time it takes the tracer substance to pass through the vascular bed within the voxel (rMTT= rCBV/rCBF).
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: regional mean transit time dataset
IAO_0000412: particular
IAO_0000114: IAO_0000120

Disease staging
IAO_0000111: disease staging

accuracy value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

registration with distortion correction
IAO_0000115: A REGISTRATION WITH DISTORTION CORRECTION is a REGISTRATION which has for part a DISTORTION CORRECTION. [EP/ER] Every REGISTRATION WITH DISTORTION CORRECTION has for data at least one CALIBRATION DATASET or PARAMETER QUANTIFICATION DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

FMA_55662
IAO_0000111: lobular organ

permutation
creation date: October 16th, 2008
IAO_0000117: PERMUTATION is a RESAMPLING
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

FMA_55663
IAO_0000111: corticomedullary organ

displacement field dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: displacement field dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

normalization
IAO_0000115: A NORMALIZATION, or ACROSS-SUBJECT REGISTRATION, is a REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

rigid registration
IAO_0000115: A RIGID REGISTRATION is a REGISTRATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip

fractional anisotropy dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: fractional anisotropy dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

thresholding
creation date: October 16th, 2008

Monoclonal Antibody
created by: PERSON: Andrew J.Buckler
IAO_0000111: monoclonal Antibody

bias field dataset
version info: 1.1
IAO_0000115: A BIAS FIELD DATASET is a CALIBRATION DATASET which is a result of a BIAS FIELD ESTIMATION at a TIME INTERVAL.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: bias field dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

FMA_69075
IAO_0000111: endo-epithelial cell

subcortical segmentation
IAO_0000115: A SUBCORTICAL SEGMENTATION is a SEGMENTATION.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal

quantitative T2 estimation
IAO_0000115: A QUANTITATIVE T2 ESTIMATION is a QUANTITATIVE PARAMETER ESTIMATION. [EP/ER] Every QUANTITATIVE T2 ESTIMATION has for data at least two T2 WEIGHTED MR DATASET at a TIME INTERVAL. [EP/ER] Every QUANTITATIVE T2 ESTIMATION has for result a QUANTITATIVE T2 DATASET at a TIME INTERVAL.
creation date: October 16th, 2008
created by: PERSONS: Farooq Ahmad, Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
comment: Several methods can be used for the quantitative estimation of T2 in a defined tissue or structure. based on the use of a spin echo sequence and the acquisition of several T2-weighted images at different echo time during the recovery of the transverse magnetic component.
IAO_0000117: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000114: IAO_0000120

FMA_49893
IAO_0000111: coronary artery

absolute proton density dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
comment: The absolute proton concentration [1H] of a tissue defines the number of protons per unit volume of tissue. The absolute proton density of a tissue refers to the concentration of protons in this tissue, relative to that of the same volume of water at the same temperature. It is expressed in pu (percent units).
IAO_0000111: absolute proton density dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120

Diabody
created by: PERSON: Andrew J.Buckler
IAO_0000111: minibody

diagnostic validity value
comment: We have added the term value to the name of this entity that is extracted from OBCS.

multiple subjects dataset
version info: 1.1
comment: A MULTIPLE SUBJECTS DATASET is a dataset that does not refer to a single subject. For example, datasets that result from the statistical analysis of many datasets referring to multiple subjects are MULTIPLE SUBJECTS DATASETS. Such datasets may refer to multiple subjects, or may refer to a GROUP OF SUBJECTS.
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000111: multiple subject dataset
IAO_0000114: IAO_0000120

FMA_55672
IAO_0000111: organ with organ cavity

T2 star weighted MR dataset
version info: 1.1
created by: Farooq Ahmad , Michel Dojat, Bernard Gibaud, Gilles Kassel, Lynda Temal
creation date: September 30th, 2008
IAO_0000111: T2 star weighted MR dataset
source: http://neurolog.unice.fr/ontoneurolog/v3.0/OntoSpec-documentation.zip
IAO_0000412: particular
IAO_0000114: IAO_0000120