BioAssay Ontology
type: Ontology
license: https://creativecommons.org/licenses/by-sa/4.0/
version info: 2.7.2
label: BAO
comment: Created by: Hande Küçük McGinty, Janice Kranz, Joseph Ostrow, Alex Clark, Yu Lin, Saminda Abeyruwan, Uma Vempati, Kunie Sakurai, Vance Lemmon, Ubbo Visser, John Turner, Stephan Schurer*
comment: Contact: Stephan Schurer stephan dot schurer at gmail dot com
date: 8 Jul 2021

primary structure
type: Class
IAO_0000115: The quality of a biological macromolecule (DNA, RNA or protein), which could either be unmodified' (native) or modified, e.g., methylated, phosphorylated, etc.
subclass of: molecular structure

secondary structure
type: Class
subclass of: molecular structure

tertiary structure
type: Class
subclass of: molecular structure

fluorescently labeled
type: Class
subclass of: labeled

radiolabeled
type: Class
subclass of: labeled

labeled
type: Class

unlabeled
type: Class

methylated
type: Class
IAO_0000115: A quality of a DNA or RNA residue that has a methyl group attached to it.
subclass of: posttranscriptionally modified

wild type
type: Class
IAO_0000115: The phenotype of an organism that is most common in nature and was unmodified.

antibiotic resistance
type: Class
IAO_0000115: It is the quality which allows a microorganism to survive after exposure to one or more antibiotics.

molecular structure
type: Class

fused
type: Class
IAO_0000115: Fusion proteins or chimeric proteins are created through the joining of two or more cDNAs which encode different proteins. Upon expression, a single polypeptide containing each of the proteins results. Generally, the protein of interest is tagged with a reporter protein, e.g. luciferase, GFP, etc, whose expression could easily be monitored.
subclass of: primary structure

deleted
type: Class
IAO_0000115: A quality of the genetic material (DNA or RNA) that harbors a change (mutation), where one or more nucleotides are lost (spontaneously) or removed (intentionally).
subclass of: mutated

unpurified
type: Class
IAO_0000115: Crude protein preparation
subclass of: categorical purity

wavelength
type: Class
IAO_0000115: A physical quality which is equal to the distance between repeating units of a wave pattern (from PATO). For fluorescence measurements, it is the wavelength at which the fluorophore is excited and the wavelength at which it emits fluorescence. In the case of absorbance, it is the wavelength at which light is absorbed by a biological entity or a dye.

excitation wavelength
type: Class
IAO_0000115: For fluorescence measurements, it is the wavelength at which a fluorophore is excited
subclass of: wavelength

emission wavelength
type: Class
IAO_0000115: For fluorescence measurements, it is the wavelength at which an excited fluorophore emits fluorescence.
subclass of: wavelength

absorbance wavelength
type: Class
IAO_0000115: In absorbance measurements, it is the wavelength at which light is absorbed by a biological entity or a dye
subclass of: wavelength

partially purified
type: Class
IAO_0000115: The protein is only partially purified
subclass of: categorical purity

inserted
type: Class
IAO_0000115: A quality of the genetic material (DNA or RNA) that harbors a change (mutation), where one or more nucleotides are added either spontaneously (within the cell) or intentionally (experimentally).
subclass of: mutated

point mutated
type: Class
IAO_0000115: A quality of the genetic material (DNA or RNA) that harbors a change (mutation), where one nucleotide is replaced by a different nucleotide either spontaneously (within the cell) or intentionally (experimentally).
subclass of: mutated

mutated
type: Class
IAO_0000115: Mutation is any alteration in a gene, which may be disease causing or a normal variant. Mutations are introduced into the genes and subsequently, introduced into cells for expression. Different types of mutations include missense, nonsense, deletions, insertions, etc.
subclass of: primary structure

truncated
type: Class
IAO_0000115: A quality of a protein that harbors a change (mutation), where a portion of the protein towards the carboxyl-terminal is missing either spontaneously (within the cell) or intentionally (experimentally).
subclass of: mutated

posttranslationally modified
type: Class
IAO_0000115: A quality of an amino acid residue that has a moiety (e.g., phosphate, carbohydrate) attached to it after translation.
subclass of: primary structure

amino acid substituted
type: Class
IAO_0000115: A quality of a protein that harbors a change (mutation), where either one or more amino acids are replaced by different ones to study the role of those amino acids in the function of the protein.
subclass of: mutated

conformation
type: Class
subclass of: tertiary structure

engineered
type: Class
IAO_0000115: The phenotype of an organism that has been derived by genetic modification.

cell growth property
type: Class
IAO_0000115: Cell line culturing describes the growth mode of a cell line, whether it grows attached to the culture dish (adherent) or floating (suspension) in the culture medium or partially attached (mixed adherent and suspension).

adherent
type: Class
subclass of: cell growth property

suspension
type: Class
subclass of: cell growth property

mixed
type: Class
subclass of: cell growth property

native form
type: Class
IAO_0000118: canonical form
IAO_0000115: A quality of a protein of being the predominant form in an organism.
subclass of: primary structure

posttranscriptionally modified
type: Class
IAO_0000115: A quality of a DNA or RNA residue that has a group (e.g., methyl) attached to it after transcription.
subclass of: primary structure

tagged
type: Class
subclass of: primary structure

glycosylated
type: Class
IAO_0000115: A quality of an amino acid residue that has a carbohydrate moiety attached to it.
subclass of: posttranslationally modified

antibody isotype
type: Class
IAO_0000115: The different varieties or classes of antibodies, which differ in their properties and biological functions.

IgG
type: Class
subclass of: antibody isotype

IgA
type: Class
subclass of: antibody isotype

IgM
type: Class
subclass of: antibody isotype

IgD
type: Class
subclass of: antibody isotype

IgE
type: Class
subclass of: antibody isotype

purity
type: Class

categorical purity
type: Class
subclass of: purity

unfolded conformation
type: Class
subclass of: conformation

native conformation
type: Class
subclass of: conformation

bandwidth
type: Class
IAO_0000115: Bandwidth is the range of wavelength of light that it allows to pass through the filter, which is either excitation or emission type.

isoform
type: Class
IAO_0000115: A quality of a protein that harbors a variation from the native protein (called canonical form), which could arise due to alternative promoter usage, alternative splicing, alternative translation initiation and ribosomal frameshifting.
subclass of: primary structure

Gram positive
type: Class
subclass of: Gram staining

Gram negative
type: Class
subclass of: Gram staining

Gram staining
type: Class

quality
type: Class

purified
type: Class
subclass of: categorical purity

extract
type: Class
subclass of: categorical purity

extract fraction
type: Class
subclass of: categorical purity

activated
type: Class

synthetic
type: Class

endogenous
type: Class

cellular quality
type: Class
deprecated: true
subclass of: quality

molecular quality
type: Class
deprecated: true
subclass of: quality

organismal quality
type: Class
deprecated: true
subclass of: quality

physical quality
type: Class
deprecated: true
subclass of: quality