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Radiation Biology Ontology

The RBO is an ontology about Radiation Biology, with emphasis on Space Biology. The effects of all kinds of radiation on biological systems is the subject of much research, both on earth and in space environments. This ontology is designed to support the needs of these investigators, particularly for organizing, describing and archiving data from experiments and observations examining these effects.

See Radiation Research, International Journal of Radiation Oncology, Biology, Physics

More information can be found at http://obofoundry.org/ontology/RBO

Versions

Stable release versions

The latest version of the RBO can always be found at:

http://purl.obolibrary.org/obo/RBO.owl

(note this will not show up until the request has been approved by obofoundry.org)

Editors' version

Editors of this ontology should use the edit version, src/ontology/rbo-edit.owl

Contact

Please use this GitHub repository's Issue tracker to request new terms/classes or report errors or specific concerns related to the ontology.

Acknowledgements

This ontology repository was created using the ontology starter kit

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rbo's Issues

Alternate definition of relative biological effectiveness (RBE)

Definition: A factor assigned to a type of ionizing radiation in converting absorbed dose measured in grays to a biologically equivalent dose measured in sieverts. In formula form, (equivalent dose) = (quality factor) x (absorbed dose).
Suggested definition: The RBE of a type of radiation is the ratio of the dose, D_R, of a reference radiation, typically gamma or x-rays, needed to produce the same degree of biological effect on an organism as a given dose of the radiation of interest
Definition Source: NCIT
Example of usage: If 11 Gy of x-rays result in the same amount of cell killing as 10 Gy of protons, the RBE of protons is 1.1
Label:
Alternative Term:
Editor Preferred Term:
Term Editor: J. Miller

NTR "fluence"

The number of particles or photons per unit of cross-sectional area perpendicular to the direction of the particle (units of m–2 or cm–2) (i.e., particles per m2 or per cm2).

Vet definition of ionization

Any process by which a neutral atom or molecule gains or loses electrons, thereby acquiring a net electric charge

flux - unimport PATO definition

Unimport PATO. definition

NTR:

The quotient of dN by dt, where dN is the increment of the particle number in the time interval dt. The unit for flux is reciprocal second (s–1.)

NTR "bystander effect"

The term used to describe the effects on cells in which the energy had not been directly deposited. In most instances, the cells so affected were neighbors of the cells directly impacted by the radiation

Vet definition of radiation quality

Definition: A quality that inheres in an bearer by virtue of how that bearer interacts with radiation

Definition Source: PATO, AGRO, DPO, ECO, ECOCORE, ECTO, ENVO, FLOPO, GAZ, HP, MCO, MONDO, MP, MS, NBO, OBA, OBI, OLOBO, PLANP, TO, UPHENO, WBPhenotype, XPO, ZP

Alternate Definition: A characterization of radiation in terms of one or more parameters, e.g. particle type, energy or linear energy transfer.

Example of usage: "Radiation quality has been commonly expressed in terms of the LET of the ionizing particles that deliver the absorbed dose." (Rossi, 1959)

Label:

Alternative Term:

Editor Preferred Term:

Term Editor: J. Miller

upload "alpha radiation" definition from NCIT

Energetic nuclei of helium atoms, consisting of two protons and two neutrons, emitted spontaneously from nuclei in the decay of some radionuclides. Alpha radiation is weakly penetrating, and can be stopped by a sheet of paper or the outer dead layer of skin. Also called alpha particle and sometimes shortened to alpha (e.g., alpha-emitting radionuclide).

define "heavy ion"

In RBO but undefined. Use:

An atomic nucleus with 2 or more protons. Ions with charges between 2 (helium) and approximately 10 (neon) are sometimes referred to as light ions.

Vet definition of irradiation

Exposure of an organism or object to radiation, typically from a defined source such as an x-ray machine, radioactive isotope or particle accelerator, or to ambient radiation on the ground (e.g. ultraviolet radiation in sunlight, radon) or in space (e.g. the Earth’s trapped radiation belts, galactic cosmic rays, solar particle events)

Vet definition of dose equivalent

A quantity equal to the product of the absorbed radiation dose and a dimensionless weighting factor proportional to the propensity of a given radiation type to produce a biological effect.

NTR "excess lifetime risk"

The excess risk from induced cancer due to exposure when the effects over an entire lifetime are accounted for. Individuals who would have died of cancer anyway but die early because of exposure are not included

NTR: microgravity

Definition: A condition where the effects of gravity are not felt or are extremely small. Microgravity can obtain when an object is unsupported, as in free fall, or when the downward acceleration of gravity is offset by an upward force, e.g. centripetal acceleration in an aircraft flying a parabolic trajectory.

Definition Source: Ed.

Example of usage: Experiments on the International Space Station are used to test the effects of microgravity on biological samples and physical phenomena.

Label:

Alternative Term: weightlessness, zero-G

Editor Preferred Term: microgravity

Term Editor: J. Miller

Vet definition of effective dose

The product of absorbed dose and a dimensionless weighting factor depending on the effect of the radiation on the whole body.

NTR "cosmic radiation"

Penetrating ionizing radiation, both particulate and electromagnetic, that originates in outer space

NTR "delta ray"

Highly energetic electrons produced during inelastic collisions between ionizing radiation and atomic electrons. In a small proportion of collisions, the ejected electron receives a considerable amount of energy (i.e., >1,000 eV), allowing it to travel a long distance and leave a trail of secondary ionizations.

NTR: weightlessness

Definition: The net absence of the effect of gravity on a body. Weightlessness can occur in free fall, e.g. an astronaut in orbit; a skydiver or in an aircraft in parabolic flight, when the outward centripetal acceleration due to the aircraft trajectory balances the downward acceleration due to the Earth's gravity.

Definition Source: Ed.

Example of usage: Crewmembers on the International Space Station experience prolonged weightlessness

Label:

Alternative Term: microgravity, zero-G

Editor Preferred Term: microgravity

Term Editor: J. Miller

NTR "background radiation"

Ambient radiation from natural sources, such as terrestrial radiation due to naturally-occurring radionuclides in the soil, cosmic radiation originating in outer space, radon, and naturally-occurring radionuclides in the human body

NTR "attenuation"

The reduction of radiation intensity upon passage of radiation through matter

NTR "ALARA"

"As Low As Reasonably Achievable" A principle of radiation protection philosophy that requires that exposures to ionizing radiation be kept as low as reasonably achievable, economic and social factors being taken into account. The protection from radiation exposure is ALARA when the expenditure of further resources would be unwarranted by the reduction in exposure that would be achieved.

Alternative definition of x-ray

Definition: A radiation process during which penetrating electromagnetic radiation is emitted by high-energy electrons as they fall into a lower state of energy.

Definition Source: ENVO

Example of usage: The biological samples were exposed to 1 Gray of x-ray radiation

Label:

Alternative Term: x-ray

Proposed alternative definition: Electromagnetic radiation produced by atomic electrons transitioning from a more loosely bound to a more tightly bound orbit.
X-ray energies range from approximately 100 to 1000 keV.

Editor Preferred Term: x-ray

Term Editor: J. Miller

NCRP Glossary of radiation terms

In researching radiation definitions I ran across this:

https://ncrponline.org/wp-content/themes/ncrp/PDFs/NCRP-Composite-Glossary.pdf

It could form the basis for the RBO. This is the 2011 version. I'll research whether it's been updated. For radiation biologists the NCRP is considered an authoritative source. (Though not the only one--there is also the ICRP, among others.)

Although it would be a huge task, one could do worse than go through this list, term by term, compare it to other ontologies, and make the NCRP def. or an edited version either the recommended def. or an alternate def.

I'm going to do that for the terms that we've identified so far that are relevant to GL .

Alternate definition of radiation quality factor Q

Definition: A factor assigned to a type of ionizing radiation in converting absorbed dose measured in grays to a biologically equivalent dose measured in sieverts. In formula form, (equivalent dose) = (quality factor) x (absorbed dose).
Definition Source: NCIT
Alternative definition (NCRP): Dimensionless factor developed for purposes of radiation protection and assessing health risks in general terms that accounts for the relative biological effectiveness of different radiations in producing stochastic effects and is used to relate absorbed dose (D) at a point in tissue to dose equivalent (H ) at a point, where H = D × Q. The quality factor is a specified function of unrestricted linear energy transfer in water, and is defined with respect to the particular type and energy of radiation incident on tissue at the point of interest
Example of usage: Neutrons have been assigned a quality factor 2, of 10. Hence a neutron dose of 10 Gy translates to a dose equivalent of 100 Sv.
Label:
Alternative Term: Quality Factor, Q
Editor Preferred Term: Quality Factor
Term Editor: J. Miller

Add "activity" to RBO

Rate of transformation (or disintegration or decay) of radioactive material. The SI unit of activity is the reciprocal second (s–1) (meaning one transformation per second), and its special name is the becquerel (Bq). In previous units often used by state and federal agencies, activity is given in curies (Ci); 1 Ci = 3.7 x 1010 Bq.

NTR "biodosimetry"

Use of a biological response as an indicator of a dose of an effective agent (e.g., the extent of decline in peripheral blood lymphocytes of humans exposed to ionizing radiation can be used as an indicator of the absorbed dose to the whole body from that exposure).

vet definition of radiation absorbed dose

The amount of energy from any type of ionizing radiation (e.g., alpha, beta, gamma, neutrons, etc.) deposited in any medium (e.g. water, tissue, air) per unit mass.

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