Term IRI Term label Parent term IRI Parent term label Alternative term Definition http://purl.obolibrary.org/obo/IAO_0000005 objective specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity goal specification A directive information entity that describes an intended process endpoint. When part of a plan specification the concretization is realized in a planned process in which the bearer tries to effect the world so that the process endpoint is achieved. http://purl.obolibrary.org/obo/IAO_0000027 data item http://purl.obolibrary.org/obo/IAO_0000030 information content entity data An information content entity that is intended to be a truthful statement about something (modulo, e.g., measurement precision or other systematic errors) and is constructed/acquired by a method which reliably tends to produce (approximately) truthful statements. http://purl.obolibrary.org/obo/IAO_0000300 textual entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity text A textual entity is a part of a manifestation (FRBR sense), a generically dependent continuant whose concretizations are patterns of glyphs intended to be interpreted as words, formulas, etc. http://purl.obolibrary.org/obo/IAO_0000574 assigning a centrally registered identifier http://purl.obolibrary.org/obo/OBI_0000011 planned process assigning a CRID A planned process in which a new CRID is created, associated with an entity, and stored in the CRID registry thereby registering it as being associated with some entity http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol http://purl.obolibrary.org/obo/IAO_0000028 symbol CRID symbol A symbol that is part of a CRID and that is sufficient to look up a record from the CRID's registry. http://purl.obolibrary.org/obo/IAO_0000578 centrally registered identifier http://purl.obolibrary.org/obo/IAO_0000030 information content entity CRID An information content entity that consists of a CRID symbol and additional information about the CRID registry to which it belongs. http://purl.obolibrary.org/obo/IAO_0000579 centrally registered identifier registry http://purl.obolibrary.org/obo/IAO_0000100 data set CRID registry A CRID registry is a dataset of CRID records, each consisting of a CRID symbol and additional information which was recorded in the dataset through a assigning a centrally registered identifier process. http://purl.obolibrary.org/obo/OBI_0000068 reporting party role http://purl.obolibrary.org/obo/OBI_0000202 investigation agent role submitter a study personnel role played by a party who reports the outcome of a study component http://purl.obolibrary.org/obo/OBI_0000070 assay http://purl.obolibrary.org/obo/OBI_0000011 planned process scientific observation A planned process that has the objective to produce information about a material entity (the evaluant) by examining it. http://purl.obolibrary.org/obo/OBI_0000073 sample preparation for assay http://purl.obolibrary.org/obo/OBI_0000094 material processing study A sample_preparation_for_assay is a protocol_application including material_enrollments and biomaterial_transformations. definition_source: OBI. http://purl.obolibrary.org/obo/OBI_0000094 material processing http://purl.obolibrary.org/obo/OBI_0000011 planned process material transformation A planned process which results in physical changes in a specified input material http://purl.obolibrary.org/obo/OBI_0000102 responsible party role http://purl.obolibrary.org/obo/OBI_0000202 investigation agent role responsible party a study personnel role played by a party who is accountable for the execution of a study component and can make decisions about the conduct of the study http://purl.obolibrary.org/obo/OBI_0000103 principal investigator role http://purl.obolibrary.org/obo/OBI_0000102 responsible party role principal investigator a responsible party role played by a person responsible for the overall conduct of a study http://purl.obolibrary.org/obo/OBI_0000202 investigation agent role http://purl.obolibrary.org/obo/BFO_0000023 role investigator A role borne by an entity and that is realized in a process that is part of an investigation in which an objective is achieved. These processes include, among others: planning, overseeing, funding, reviewing. http://purl.obolibrary.org/obo/OBI_0000423 extract http://purl.obolibrary.org/obo/OBI_0000047 processed material extracted material an extract is a material entity which results from an extraction process http://purl.obolibrary.org/obo/OBI_0000456 material transformation objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification artifact creation objective an objective specifiction that creates an specific output object from input materials. http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process http://purl.obolibrary.org/obo/OBI_0000011 planned process specimen collection A planned process with the objective of collecting a specimen. http://purl.obolibrary.org/obo/OBI_0000679 average value http://purl.obolibrary.org/obo/IAO_0000027 data item arithmetic mean A data item that is produced as the output of an averaging data transformation and represents the average value of the input data. http://purl.obolibrary.org/obo/OBI_0000744 material sampling process http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process sampling A specimen gathering process with the objective to obtain a specimen that is representative of the input material entity http://purl.obolibrary.org/obo/OBI_0000747 material sample http://purl.obolibrary.org/obo/OBI_0100051 specimen sample population A material entity that has the material sample role http://purl.obolibrary.org/obo/OBI_0000968 device http://purl.obolibrary.org/obo/OBI_0000047 processed material instrument A material entity that is designed to perform a function in a scientific investigation, but is not a reagent. http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism http://purl.obolibrary.org/obo/OBI_0100051 specimen tissue specimen A specimen that derives from an anatomical part or substance arising from an organism. Examples of tissue specimen include tissue, organ, physiological system, blood, or body location (arm). http://purl.obolibrary.org/obo/OBI_0001616 specimen identifier http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol specimen ID A CRID symbol denotes a specimen and used to distinguish one specimen from another in an investigation. http://purl.obolibrary.org/obo/OBI_0001617 PubMed ID http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol PubMed Identifier A CRID symbol that is sufficient to look up a citation from the PubMed, a literature database of life sciences and biomedical information. http://purl.obolibrary.org/obo/OBI_0001619 specimen collection time measurement datum http://purl.obolibrary.org/obo/IAO_0000416 time measurement datum collection date A time measurement datum that is the measure of the time when the specimens are collected. http://purl.obolibrary.org/obo/OBI_0001620 latitude coordinate measurement datum http://purl.obolibrary.org/obo/IAO_0000109 measurement datum latitude A measurement datum that is the measure of the latitude coordinate of a site. http://purl.obolibrary.org/obo/OBI_0001621 longitude coordinate measurement datum http://purl.obolibrary.org/obo/IAO_0000109 measurement datum longitude A measurement datum that is the measure of the longitude coordinate of a site. http://purl.obolibrary.org/obo/OBI_0001624 organism species detection assay http://purl.obolibrary.org/obo/OBI_0003498 organism detection assay organism identification assay An organism detection assay that identifies the organism species in a specimen. http://purl.obolibrary.org/obo/OBI_0001626 Bioinformatics Resource Center http://purl.obolibrary.org/obo/OBI_0000245 organization BRC An organization that is one of the Internet-based research centers established and funded by NIAID (the National Institute of Allergy and Infectious Diseases). The Bioinformatics Resource Centers (BRCs) were formed in response to the threats posed by emerging and re-emerging pathogens, particularly CDC Category A, B, and C pathogens, and their potential use in bioterrorism. The intention of NIAID in funding these bioinformatics centers is to assist researchers involved in the experimental characterization of such pathogens and the formation of drugs, vaccines, or diagnostic tools to combat them. http://purl.obolibrary.org/obo/OBI_0001942 grant agency http://purl.obolibrary.org/obo/OBI_0000245 organization funding organization An organization that provides funding support for projects such as investigations. http://purl.obolibrary.org/obo/OBI_0100060 cultured cell population http://purl.obolibrary.org/obo/OBI_0000047 processed material cell culture sample A processed material comprised of a collection of cultured cells that has been continuously maintained together in culture and shares a common propagation history. http://purl.obolibrary.org/obo/OBI_0200000 data transformation http://purl.obolibrary.org/obo/OBI_0000011 planned process data processing A planned process that produces output data from input data. http://purl.obolibrary.org/obo/OBI_0500000 study design http://purl.obolibrary.org/obo/IAO_0000104 plan specification experimental design A plan specification comprised of protocols (which may specify how and what kinds of data will be gathered) that are executed as part of an investigation and is realized during a study design execution. http://purl.obolibrary.org/obo/SO_0000001 region http://purl.obolibrary.org/obo/BFO_0000031 generically dependent continuant primary structure of sequence macromolecule A sequence_feature with an extent greater than zero. A nucleotide region is composed of bases and a polypeptide region is composed of amino acids. http://purl.obolibrary.org/obo/APOLLO_SV_00000796 dataset creating http://purl.obolibrary.org/obo/OBI_0000011 planned process dataset creation A planned process that has a data set as its specified output. http://purl.obolibrary.org/obo/CHEBI_33839 macromolecule http://purl.obolibrary.org/obo/CHEBI_23367 molecular entity polymer A macromolecule is a molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass. http://purl.obolibrary.org/obo/GO_0032991 protein-containing complex http://purl.obolibrary.org/obo/BFO_0000040 material entity protein complex A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together. http://purl.obolibrary.org/obo/OBI_0002198 molecular analysis facility organization http://purl.obolibrary.org/obo/OBI_0000245 organization MAF An organization that provides molecular analysis service. http://purl.obolibrary.org/obo/CHEBI_23367 molecular entity http://purl.obolibrary.org/obo/BFO_0000040 material entity Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity. http://purl.obolibrary.org/obo/PATO_0000165 time http://purl.obolibrary.org/obo/PATO_0001018 physical quality A quality in which events occur in sequence. http://purl.obolibrary.org/obo/PATO_0001018 physical quality http://purl.obolibrary.org/obo/PATO_0001241 physical object quality A quality of a physical entity that exists through action of continuants at the physical level of organisation in relation to other entities. http://purl.obolibrary.org/obo/PATO_0001241 physical object quality http://purl.obolibrary.org/obo/BFO_0000019 quality A quality which inheres in a continuant. http://purl.obolibrary.org/obo/BFO_0000002 continuant http://purl.obolibrary.org/obo/BFO_0000001 entity An entity that exists in full at any time in which it exists at all, persists through time while maintaining its identity and has no temporal parts. http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000001 entity An entity that has temporal parts and that happens, unfolds or develops through time. http://purl.obolibrary.org/obo/BFO_0000004 independent continuant http://purl.obolibrary.org/obo/BFO_0000002 continuant A continuant that is a bearer of quality and realizable entity entities, in which other entities inhere and which itself cannot inhere in anything. http://purl.obolibrary.org/obo/BFO_0000015 process http://purl.obolibrary.org/obo/BFO_0000003 occurrent An occurrent that has temporal proper parts and for some time t, p s-depends_on some material entity at t. http://purl.obolibrary.org/obo/BFO_0000017 realizable entity http://purl.obolibrary.org/obo/BFO_0000020 specifically dependent continuant A specifically dependent continuant that inheres in continuant entities and are not exhibited in full at every time in which it inheres in an entity or group of entities. The exhibition or actualization of a realizable entity is a particular manifestation, functioning or process that occurs under certain circumstances. http://purl.obolibrary.org/obo/BFO_0000020 specifically dependent continuant http://purl.obolibrary.org/obo/BFO_0000002 continuant A continuant that inheres in or is borne by other entities. Every instance of A requires some specific instance of B which must always be the same. http://purl.obolibrary.org/obo/BFO_0000023 role http://purl.obolibrary.org/obo/BFO_0000017 realizable entity A realizable entity the manifestation of which brings about some result or end that is not essential to a continuant in virtue of the kind of thing that it is but that can be served or participated in by that kind of continuant in some kinds of natural, social or institutional contexts. http://purl.obolibrary.org/obo/BFO_0000031 generically dependent continuant http://purl.obolibrary.org/obo/BFO_0000002 continuant A continuant that is dependent on one or other independent continuant bearers. For every instance of A requires some instance of (an independent continuant type) B but which instance of B serves can change from time to time. http://purl.obolibrary.org/obo/BFO_0000040 material entity http://purl.obolibrary.org/obo/BFO_0000004 independent continuant An independent continuant that is spatially extended whose identity is independent of that of other entities and can be maintained through time. http://purl.obolibrary.org/obo/ENVO_00010483 environmental material http://purl.obolibrary.org/obo/BFO_0000040 material entity A portion of environmental material is a fiat object part which forms the medium or part of the medium of an environmental system. http://purl.obolibrary.org/obo/GAZ_00000448 geographic location http://purl.obolibrary.org/obo/BFO_0000029 site A reference to a place on the Earth, by its name or by its geographical location. http://purl.obolibrary.org/obo/IAO_0000003 measurement unit label http://purl.obolibrary.org/obo/IAO_0000009 datum label A measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure. http://purl.obolibrary.org/obo/IAO_0000007 action specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity that describes an action the bearer will take. http://purl.obolibrary.org/obo/IAO_0000009 datum label http://purl.obolibrary.org/obo/IAO_0000030 information content entity A label is a symbol that is part of some other datum and is used to either partially define the denotation of that datum or to provide a means for identifying the datum as a member of the set of data with the same label http://purl.obolibrary.org/obo/IAO_0000015 information carrier http://purl.obolibrary.org/obo/BFO_0000019 quality A quality of an information bearer that imparts the information content http://purl.obolibrary.org/obo/IAO_0000028 symbol http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that is a mark(s) or character(s) used as a conventional representation of another entity. http://purl.obolibrary.org/obo/IAO_0000030 information content entity http://purl.obolibrary.org/obo/BFO_0000031 generically dependent continuant A generically dependent continuant that is about some thing. http://purl.obolibrary.org/obo/IAO_0000032 scalar measurement datum http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A scalar measurement datum is a measurement datum that is composed of two parts, numerals and a unit label. http://purl.obolibrary.org/obo/IAO_0000033 directive information entity http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity whose concretizations indicate to their bearer how to realize them in a process. http://purl.obolibrary.org/obo/IAO_0000064 algorithm http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which describes the inputs and output of mathematical functions as well as workflow of execution for achieving an predefined objective. Algorithms are realized usually by means of implementation as computer programs for execution by automata. http://purl.obolibrary.org/obo/IAO_0000078 curation status specification http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part The curation status of the term. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value. http://purl.obolibrary.org/obo/IAO_0000100 data set http://purl.obolibrary.org/obo/IAO_0000027 data item A data item that is an aggregate of other data items of the same type that have something in common. Averages and distributions can be determined for data sets. http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part http://purl.obolibrary.org/obo/IAO_0000027 data item Data about an ontology part is a data item about a part of an ontology, for example a term http://purl.obolibrary.org/obo/IAO_0000104 plan specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity A directive information entity with action specifications and objective specifications as parts that, when concretized, is realized in a process in which the bearer tries to achieve the objectives by taking the actions specified. http://purl.obolibrary.org/obo/IAO_0000109 measurement datum http://purl.obolibrary.org/obo/IAO_0000027 data item A measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device. http://purl.obolibrary.org/obo/IAO_0000178 material information bearer http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity in which a concretization of an information content entity inheres. http://purl.obolibrary.org/obo/IAO_0000225 obsolescence reason specification http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part The reason for which a term has been deprecated. The allowed values come from an enumerated list of predefined terms. See the specification of these instances for more detailed definitions of each enumerated value. http://purl.obolibrary.org/obo/IAO_0000310 document http://purl.obolibrary.org/obo/IAO_0000030 information content entity A collection of information content entities intended to be understood together as a whole http://purl.obolibrary.org/obo/IAO_0000311 publication http://purl.obolibrary.org/obo/IAO_0000310 document A document that has been accepted by a publisher http://purl.obolibrary.org/obo/IAO_0000409 denotator type http://purl.obolibrary.org/obo/IAO_0000102 data about an ontology part A denotator type indicates how a term should be interpreted from an ontological perspective. http://purl.obolibrary.org/obo/IAO_0000416 time measurement datum http://purl.obolibrary.org/obo/IAO_0000032 scalar measurement datum A scalar measurement datum that is the result of measuring a temporal interval http://purl.obolibrary.org/obo/IAO_0000572 documenting http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which a document is created or added to by including the specified input in it. http://purl.obolibrary.org/obo/IDO_0000586 infection http://purl.obolibrary.org/obo/BFO_0000040 material entity A part of an extended organism that itself has as part a population of one or more infectious agents and that (1) exists as a result of processes initiated by members of the infectious agent population and is (2) clinically abnormal in virtue of the presence of this infectious agent population, or (3) has a disposition to bring clinical abnormality to immunocompetent organisms of the same Species as the host (the organism corresponding to the extended organism) through transmission of a member or offspring of a member of the infectious agent population. http://purl.obolibrary.org/obo/IDO_0000666 human pathogenicity disposition http://purl.obolibrary.org/obo/IDO_0000450 pathogenic disposition A disposition to initiate processes that result in a disorder in a human organism. http://purl.obolibrary.org/obo/OBI_0000011 planned process http://purl.obolibrary.org/obo/BFO_0000015 process A process that realizes a plan which is the concretization of a plan specification. http://purl.obolibrary.org/obo/OBI_0000015 biological feature identification objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification Biological_feature_identification_objective is an objective role carried out by the proposition defining the aim of a study designed to examine or characterize a particular biological feature. http://purl.obolibrary.org/obo/OBI_0000047 processed material http://purl.obolibrary.org/obo/BFO_0000040 material entity Is a material entity that is created or changed during material processing. http://purl.obolibrary.org/obo/OBI_0000066 investigation http://purl.obolibrary.org/obo/OBI_0000011 planned process a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s). http://purl.obolibrary.org/obo/OBI_0000067 evaluant role http://purl.obolibrary.org/obo/BFO_0000023 role a role that inheres in a material entity that is realized in an assay in which data is generated about the bearer of the evaluant role http://purl.obolibrary.org/obo/OBI_0000079 culture medium http://purl.obolibrary.org/obo/OBI_0000047 processed material a processed material that provides the needed nourishment for microorganisms or cells grown in vitro. http://purl.obolibrary.org/obo/OBI_0000112 specimen role http://purl.obolibrary.org/obo/BFO_0000023 role a role borne by a material entity that is gained during a specimen collection process and that can be realized by use of the specimen in an investigation http://purl.obolibrary.org/obo/OBI_0000245 organization http://purl.obolibrary.org/obo/BFO_0000040 material entity An entity that can bear roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members. http://purl.obolibrary.org/obo/OBI_0000272 protocol http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process. http://purl.obolibrary.org/obo/OBI_0000338 drawing a conclusion based on data http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which data gathered in an investigation is evaluated in the context of existing knowledge with the objective to generate more general conclusions or to conclude that the data does not allow one to draw general conclusion http://purl.obolibrary.org/obo/OBI_0000339 planning http://purl.obolibrary.org/obo/BFO_0000015 process a process of creating or modifying a plan specification http://purl.obolibrary.org/obo/OBI_0000419 reverse transcriptase http://purl.obolibrary.org/obo/OBI_0000427 enzyme enzyme and has_function some GO:0003964 (RNA-directed DNA polymerase activity) http://purl.obolibrary.org/obo/OBI_0000425 averaging objective http://purl.obolibrary.org/obo/OBI_0200166 data transformation objective An averaging objective is a data transformation objective where the aim is to perform mean calculations on the input of the data transformation. http://purl.obolibrary.org/obo/OBI_0000427 enzyme http://purl.obolibrary.org/obo/BFO_0000040 material entity (protein or rna) or has_part (protein or rna) and has_function some GO:0003824 (catalytic activity) http://purl.obolibrary.org/obo/OBI_0000441 assay objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification an objective specification to determine a specified type of information about an evaluated entity (the material entity bearing evaluant role) http://purl.obolibrary.org/obo/OBI_0000453 measure function http://purl.obolibrary.org/obo/BFO_0000034 function Measure function is a function that is borne by a processed material and realized in a process in which information about some entity is expressed relative to some reference. http://purl.obolibrary.org/obo/OBI_0000471 study design execution http://purl.obolibrary.org/obo/OBI_0000011 planned process a planned process that carries out a study design http://purl.obolibrary.org/obo/OBI_0000639 material separation objective http://purl.obolibrary.org/obo/OBI_0000456 material transformation objective is an objective to transform a material entity into spatially separated components. http://purl.obolibrary.org/obo/OBI_0000671 sample from organism http://purl.obolibrary.org/obo/OBI_0001479 specimen from organism a material obtained from an organism in order to be a representative of the whole http://purl.obolibrary.org/obo/OBI_0000678 portioning objective http://purl.obolibrary.org/obo/OBI_0000639 material separation objective A material separation objective aiming to separate material into multiple portions, each of which contains a similar composition of the input material. http://purl.obolibrary.org/obo/OBI_0000681 separation into different composition objective http://purl.obolibrary.org/obo/OBI_0000639 material separation objective A material separation objective aiming to separate a material entity that has parts of different types, and end with at least one output that is a material with parts of fewer types (modulo impurities). http://purl.obolibrary.org/obo/OBI_0000684 specimen collection objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification A objective specification to obtain a material entity for potential use as an input during an investigation. http://purl.obolibrary.org/obo/OBI_0000740 material sample role http://purl.obolibrary.org/obo/OBI_0000112 specimen role A material sample role is a specimen role borne by a material entity that is the output of a material sampling process. http://purl.obolibrary.org/obo/OBI_0000806 material maintenance objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification An objective specification maintains some or all of the qualities of a material over time. http://purl.obolibrary.org/obo/OBI_0000832 measurement device http://purl.obolibrary.org/obo/OBI_0000968 device A device in which a measure function inheres. http://purl.obolibrary.org/obo/OBI_0000838 material maintenance http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process with the objective to maintain some or all of the characteristics of an input material over time. http://purl.obolibrary.org/obo/OBI_0000845 primary structure of RNA molecule http://purl.obolibrary.org/obo/SO_0000001 region The primary structure of an RNA molecule that is completely defined by the set of its nucleic residue parts and the linear order induced by the peptide bonds that hold them together http://purl.obolibrary.org/obo/OBI_0000905 sequence feature annotation http://purl.obolibrary.org/obo/IAO_0000030 information content entity Information about a sequence region http://purl.obolibrary.org/obo/OBI_0000925 infectious agent http://purl.obolibrary.org/obo/OBI_0100026 organism is a material entity bearing the disposition to infect an organism http://purl.obolibrary.org/obo/OBI_0000941 service consumer role http://purl.obolibrary.org/obo/BFO_0000023 role a role which inheres in a person who uses a service http://purl.obolibrary.org/obo/OBI_0000947 service provider role http://purl.obolibrary.org/obo/BFO_0000023 role is a role which inheres in a person or organization and is realized in in a planned process which provides access to training, materials or execution of protocols for an organization or person http://purl.obolibrary.org/obo/OBI_0000953 processed specimen http://purl.obolibrary.org/obo/OBI_0100051 specimen A specimen that has been intentionally physically modified. http://purl.obolibrary.org/obo/OBI_0000971 fresh specimen http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state a specimen that is output of a specimen creation process used for an investigation without storage. http://purl.obolibrary.org/obo/OBI_0000973 sequence data http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A measurement datum that representing the primary structure of a macromolecule(it's sequence) sometimes associated with an indicator of confidence of that measurement. http://purl.obolibrary.org/obo/OBI_0001010 nucleic acid extract http://purl.obolibrary.org/obo/OBI_0000953 processed specimen An extract that is the output of an extraction process in which nucleic acid molecules are isolated from a specimen. http://purl.obolibrary.org/obo/OBI_0001108 nucleic acid sequencer http://purl.obolibrary.org/obo/OBI_0000832 measurement device An device that is used to determine the order of nucleotides in nucleic acid sequences. http://purl.obolibrary.org/obo/OBI_0001137 protein sequencer http://purl.obolibrary.org/obo/OBI_0000832 measurement device An device that is used to determine the order of amino acids in protein sequences. http://purl.obolibrary.org/obo/OBI_0001141 individual organism identifier http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol a CRID symbol used to distinguish one individual organism from another. http://purl.obolibrary.org/obo/OBI_0001167 age measurement datum http://purl.obolibrary.org/obo/IAO_0000416 time measurement datum A time measurement datum that is the result of measurement of age of an organism http://purl.obolibrary.org/obo/OBI_0001173 service http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process in which a service provider performs a task (i.e. a planned process) for a service consumer. http://purl.obolibrary.org/obo/OBI_0001472 specimen with known storage state http://purl.obolibrary.org/obo/OBI_0100051 specimen A specimen for which it is known whether it has been subjected to storage of a specified type. http://purl.obolibrary.org/obo/OBI_0001515 material maintenance service http://purl.obolibrary.org/obo/OBI_0001528 material service A material processing service in which a service provider makes physical modifications to a specified input material, such that at least one of the specified outputs of this process is a modified version of a specified input material. http://purl.obolibrary.org/obo/OBI_0001522 sequence assembly algorithm http://purl.obolibrary.org/obo/IAO_0000064 algorithm An algorithm used to assemble individual sequence reads into larger contiguous sequences (contigs). Assembly details include but are not limited to assembler type (overlap-layout-consensus, deBruijn), assembler version, and any relevant quality control information such as per cent known genes/ESTs captured. http://purl.obolibrary.org/obo/OBI_0001528 material service http://purl.obolibrary.org/obo/OBI_0001173 service A service which has a material entity as specified input and/or specified output. http://purl.obolibrary.org/obo/OBI_0001547 material analysis service http://purl.obolibrary.org/obo/OBI_0001528 material service A service in which a service consumer provides some input material and a service provider performs some analysis of this material to generate data that is returned to the service consumer. http://purl.obolibrary.org/obo/OBI_0001557 material storage service http://purl.obolibrary.org/obo/OBI_0001515 material maintenance service A storage service in which a service consumer provides some material as input which a service provider stores and returns as output. http://purl.obolibrary.org/obo/OBI_0001614 GenBank ID http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol A CRID symbol uniquely indentifies the submitted GeneBank sequence record. http://purl.obolibrary.org/obo/OBI_0001615 investigation description http://purl.obolibrary.org/obo/OBI_0001898 comment on investigation A textual entity that describes an investigation. http://purl.obolibrary.org/obo/OBI_0001618 average depth of sequence coverage http://purl.obolibrary.org/obo/OBI_0000679 average value An average value of the depth of sequence coverage based both on external (e.g. Cot-based size estimates) and internal (average coverage in the assembly) measures of genome size. http://purl.obolibrary.org/obo/OBI_0001622 investigation title http://purl.obolibrary.org/obo/OBI_0001898 comment on investigation A textual entity that denotes an investigation. http://purl.obolibrary.org/obo/OBI_0001623 organism species detection objective http://purl.obolibrary.org/obo/OBI_0000015 biological feature identification objective A biological feature identification objective to identify the organism species in a specimen. http://purl.obolibrary.org/obo/OBI_0001625 sequence annotation algorithm http://purl.obolibrary.org/obo/IAO_0000064 algorithm An algorithm used to identify sequence features (e.g. protein coding regions) in the assembled contig sequence. This may also include a description of any manual curation that may have generated or validated the annotation. http://purl.obolibrary.org/obo/OBI_0001627 country name http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that denotes a geographic location that is a site or part of a site that is identified as a country in the political geography. http://purl.obolibrary.org/obo/OBI_0001628 investigation identifier http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol A CRID symbol used to identify an investigation. http://purl.obolibrary.org/obo/OBI_0001629 grant identifier http://purl.obolibrary.org/obo/IAO_0000577 centrally registered identifier symbol A CRID symbol used to identify a grant. http://purl.obolibrary.org/obo/OBI_0001636 grant http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification of organization A to give money to organization B so that B conducts investigations. Organization A has funder role and Organization B has research organization role. http://purl.obolibrary.org/obo/OBI_0001687 contact representative role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in a person who represents an institution, organization, or service provider and realized when communication is directed at them about the entity they represent. http://purl.obolibrary.org/obo/OBI_0001769 specimen collector role http://purl.obolibrary.org/obo/OBI_0000202 investigation agent role An Investigation agent role borne by a person or organization which is realized in a specimen collection process. http://purl.obolibrary.org/obo/OBI_0001880 organization of specimen provider principal investigator http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that is the affiliation of the principal investigator providing the specimens for the investigation http://purl.obolibrary.org/obo/OBI_0001881 organization of Bioinformatics Resource Center contact person http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that is the affiliation of the person who is contact representative of a Bioinformatics Resource Center http://purl.obolibrary.org/obo/OBI_0001882 target material in specimen specification http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which specifies the type of material that will be assayed in an investigation. http://purl.obolibrary.org/obo/OBI_0001883 Bioinformatics Resource Center contact person http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who is the contact representative of a Bioinformatics Resource Center http://purl.obolibrary.org/obo/OBI_0001884 specimen-based scope of investigation specification http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which specifies the scope of an investigation based on the heterogeneity of organisms or type of material that are the specified input of specimen collection. http://purl.obolibrary.org/obo/OBI_0001885 specimen repository organization http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that provides a service to store and distribute specimens http://purl.obolibrary.org/obo/OBI_0001887 email address of Bioinformatics Resource Center contact person http://purl.obolibrary.org/obo/IAO_0000429 email address An email address of the person who is contact representative of a Bioinformatics Resource Center http://purl.obolibrary.org/obo/OBI_0001888 sequencing facility contact person http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who is the contact representative at the sequencing facility http://purl.obolibrary.org/obo/OBI_0001889 specimen provider principal investigator http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who is a principal investigator and provides the specimen http://purl.obolibrary.org/obo/OBI_0001890 email address of specimen collector http://purl.obolibrary.org/obo/IAO_0000429 email address An email address of the person collecting the specimen http://purl.obolibrary.org/obo/OBI_0001891 sequencing facility organization http://purl.obolibrary.org/obo/OBI_0002198 molecular analysis facility organization An organization that provides sequence determination service http://purl.obolibrary.org/obo/OBI_0001892 specification of data to be generated in an investigation http://purl.obolibrary.org/obo/IAO_0000005 objective specification An objective specification which indicates the type of data that will be generated and submitted to a database. http://purl.obolibrary.org/obo/OBI_0001893 organization of specimen collector http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that is the affiliation of the person collecting the specimen http://purl.obolibrary.org/obo/OBI_0001894 email address of sequencing facility contact person http://purl.obolibrary.org/obo/IAO_0000429 email address An email address of the contact representative at the sequencing facility http://purl.obolibrary.org/obo/OBI_0001895 specimen collector http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens A person who collects the specimen http://purl.obolibrary.org/obo/OBI_0001896 investigation assay specification http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which indicates the assay type used to obtain data. http://purl.obolibrary.org/obo/OBI_0001897 organization of sequencing facility contact person http://purl.obolibrary.org/obo/OBI_0000245 organization An organization that is the affiliation of the contact representative at the sequencing facility http://purl.obolibrary.org/obo/OBI_0001898 comment on investigation http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that is about any of the aspects of an investigation worth noting http://purl.obolibrary.org/obo/OBI_0001899 target capture specification http://purl.obolibrary.org/obo/IAO_0000104 plan specification A plan specification which specifies how the material enrichment procedure will influence the scale, or type of material that will be assayed in the specimen. http://purl.obolibrary.org/obo/OBI_0001900 specimen identifier assigned by specimen repository http://purl.obolibrary.org/obo/OBI_0001616 specimen identifier A specimen identifier which is assigned by a specimen repository http://purl.obolibrary.org/obo/OBI_0001901 specimen identifier assigned by sequencing facility http://purl.obolibrary.org/obo/OBI_0001616 specimen identifier A specimen identifier which is assigned by a sequencing facility http://purl.obolibrary.org/obo/OBI_0001902 sample preparation for sequencing assay http://purl.obolibrary.org/obo/OBI_0000073 sample preparation for assay A sample preparation for assay that preparation of nucleic acids for a sequencing assay http://purl.obolibrary.org/obo/OBI_0001903 email address of specimen provider principal investigator http://purl.obolibrary.org/obo/IAO_0000429 email address An email address of the principal investigator providing the specimens for the investigation http://purl.obolibrary.org/obo/OBI_0001904 sequencing service http://purl.obolibrary.org/obo/OBI_0001547 material analysis service A service provides sequencing service which is the realization of some sequencing such as RNA and DNA sequencing in which the service provider role is realized. http://purl.obolibrary.org/obo/OBI_0001909 conclusion based on data http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that is inferred from data. http://purl.obolibrary.org/obo/OBI_0001912 cell freezing medium http://purl.obolibrary.org/obo/OBI_0000047 processed material A processed material that serves as a liquid vehicle for freezing cells for long term quiescent stroage, which contains chemicls needed to sustain cell viability across freeze-thaw cycles. http://purl.obolibrary.org/obo/OBI_0001931 scalar value specification http://purl.obolibrary.org/obo/OBI_0001933 value specification A value specification that consists of two parts: a numeral and a unit label http://purl.obolibrary.org/obo/OBI_0001933 value specification http://purl.obolibrary.org/obo/IAO_0000030 information content entity An information content entity that specifies a value within a classification scheme or on a quantitative scale. http://purl.obolibrary.org/obo/OBI_0001944 sequence annotation http://purl.obolibrary.org/obo/OBI_0000011 planned process A planned process that identifies and reports sequence features (e.g. protein coding regions) in sequence data. http://purl.obolibrary.org/obo/OBI_0001947 sequence annotation provider http://purl.obolibrary.org/obo/BFO_0000040 material entity A person or organization reporting the feature annotation results from the analysis of a macromolecular sequence. http://purl.obolibrary.org/obo/OBI_0001948 sequence assembly name http://purl.obolibrary.org/obo/IAO_0000300 textual entity A textual entity that is used to denote a sequence assembly. http://purl.obolibrary.org/obo/OBI_0001949 sequence annotation reporting role http://purl.obolibrary.org/obo/OBI_0000068 reporting party role A reporting party role that is realized by a person or organization who reports the feature annotation results from the analysis of a macromolecular sequence. http://purl.obolibrary.org/obo/OBI_0001977 cytometry assay http://purl.obolibrary.org/obo/OBI_0000070 assay An assay that counts and/or measures characteristics of cells. http://purl.obolibrary.org/obo/OBI_0002076 collection of specimens http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity that has two or more specimens as its parts. http://purl.obolibrary.org/obo/OBI_0100010 Epstein Barr virus transformed B cell http://purl.obolibrary.org/obo/OBI_0000047 processed material A material entity which results from viral transformation process using EBV as transformation agent when applied to B-cell entity http://purl.obolibrary.org/obo/OBI_0100026 organism http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs. http://purl.obolibrary.org/obo/OBI_0100051 specimen http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity that has the specimen role. http://purl.obolibrary.org/obo/OBI_0200166 data transformation objective http://purl.obolibrary.org/obo/IAO_0000005 objective specification An objective specification to transformation input data into output data http://purl.obolibrary.org/obo/OBI_0200170 averaging data transformation http://purl.obolibrary.org/obo/OBI_0200000 data transformation An averaging data transformation is a data transformation that has objective averaging. http://purl.obolibrary.org/obo/OBI_0302884 extraction http://purl.obolibrary.org/obo/OBI_0600014 material component separation A material separation in which a desired component of an input material is separated from the remainder http://purl.obolibrary.org/obo/OBI_0302893 storage http://purl.obolibrary.org/obo/OBI_0000838 material maintenance A planned process with the objective to preserve and protect material entities by placing them in an identified location which may have a controlled environment. http://purl.obolibrary.org/obo/OBI_0400103 DNA sequencer http://purl.obolibrary.org/obo/OBI_0000832 measurement device A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences. http://purl.obolibrary.org/obo/OBI_0600005 collecting specimen from organism http://purl.obolibrary.org/obo/OBI_0000659 specimen collection process a process with the objective to obtain a material entity that was part of an organism for potential future use in an investigation http://purl.obolibrary.org/obo/OBI_0600014 material component separation http://purl.obolibrary.org/obo/OBI_0000094 material processing a material processing in which components of an input material become segregated in space http://purl.obolibrary.org/obo/OBI_0600024 maintaining cell culture http://purl.obolibrary.org/obo/OBI_0000838 material maintenance A planned process with the objective to keep cells alive in a defined environment outside of an organism. http://purl.obolibrary.org/obo/OBI_0600036 establishing cell culture http://purl.obolibrary.org/obo/OBI_0000094 material processing a process through which a new type of cell culture or cell line is created, either through the isolation and culture of one or more cells from a fresh source, or the deliberate experimental modification of an existing cell culture (e.g passaging a primary culture to become a secondary culture or line, or the immortalization or stable genetic modification of an existing culture or line). http://purl.obolibrary.org/obo/OBI_0600047 sequencing assay http://purl.obolibrary.org/obo/OBI_0000070 assay An assay the uses chemical or biochemical means to infer the sequence of a biomaterial http://purl.obolibrary.org/obo/OBI_0666667 nucleic acid extraction http://purl.obolibrary.org/obo/OBI_0302884 extraction a material separation to recover the nucleic acid fraction of an input material http://purl.obolibrary.org/obo/OBI_1110021 infection process http://purl.obolibrary.org/obo/OBI_1110122 pathologic process the detrimental process in which an infectious agent colonizes or replicates in a host environment http://purl.obolibrary.org/obo/OBI_1110093 disposition to infect an organism http://purl.obolibrary.org/obo/BFO_0000016 disposition Is a role borne by an agent, and realized when in contact with or inside another organism in which it is capable of replicating and causing disease http://purl.obolibrary.org/obo/OBI_1110122 pathologic process http://purl.obolibrary.org/obo/GO_0008150 biological_process abnormal, harmful processes caused by or associated with a disease http://purl.obolibrary.org/obo/OGMS_0000031 disease http://purl.obolibrary.org/obo/BFO_0000016 disposition A disposition (i) to undergo pathological processes that (ii) exists in an organism because of one or more disorders in that organism. http://purl.obolibrary.org/obo/OGMS_0000063 disease course http://purl.obolibrary.org/obo/GO_0008150 biological_process The totality of all processes through which a given disease instance is realized. http://purl.obolibrary.org/obo/PATO_0000011 age http://purl.obolibrary.org/obo/PATO_0000165 time A time quality inhering in a bearer by virtue of how long the bearer has existed. http://purl.obolibrary.org/obo/PATO_0000047 biological sex http://purl.obolibrary.org/obo/PATO_0001995 organismal quality An organismal quality inhering in a bearer by virtue of the bearer's ability to undergo sexual reproduction in order to differentiate the individuals or types involved. http://purl.obolibrary.org/obo/PATO_0001995 organismal quality http://purl.obolibrary.org/obo/PATO_0001241 physical object quality A quality that inheres in an entire organism or part of an organism. http://purl.obolibrary.org/obo/PR_000000001 protein http://purl.obolibrary.org/obo/CHEBI_16670 peptide An amino acid chain that is produced de novo by ribosome-mediated translation of a genetically-encoded mRNA, and any derivatives thereof. http://purl.obolibrary.org/obo/SO_0000353 sequence_assembly http://purl.obolibrary.org/obo/SO_0001248 assembly A sequence of nucleotides that has been algorithmically derived from an alignment of two or more different sequences. http://purl.obolibrary.org/obo/SO_0001248 assembly http://purl.obolibrary.org/obo/SO_0001410 experimental_feature A region of the genome of known length that is composed by ordering and aligning two or more different regions. http://purl.obolibrary.org/obo/UO_0000003 time unit http://purl.obolibrary.org/obo/IAO_0000003 measurement unit label A unit which is a standard measure of the dimension in which events occur in sequence. http://purl.obolibrary.org/obo/CHEBI_33696 nucleic acid http://purl.obolibrary.org/obo/CHEBI_33839 macromolecule A macromolecule made up of nucleotide units and hydrolysable into certain pyrimidine or purine bases (usually adenine, cytosine, guanine, thymine, uracil), D-ribose or 2-deoxy-D-ribose and phosphoric acid. http://purl.obolibrary.org/obo/CL_0000000 cell http://purl.obolibrary.org/obo/BFO_0000040 material entity A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane. http://purl.obolibrary.org/obo/CL_0000010 cultured cell http://purl.obolibrary.org/obo/CL_0000578 experimentally modified cell in vitro A cell in vitro that is or has been maintained or propagated as part of a cell culture. http://purl.obolibrary.org/obo/CL_0000236 B cell http://purl.obolibrary.org/obo/CL_0000542 lymphocyte A lymphocyte of B lineage that is capable of B cell mediated immunity. http://purl.obolibrary.org/obo/CL_0000542 lymphocyte http://purl.obolibrary.org/obo/CL_0000842 mononuclear cell A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin. http://purl.obolibrary.org/obo/CL_0000578 experimentally modified cell in vitro http://purl.obolibrary.org/obo/CL_0000000 cell A cell in vitro that has undergone physical changes as a consequence of a deliberate and specific experimental procedure. http://purl.obolibrary.org/obo/CL_0000842 mononuclear cell http://purl.obolibrary.org/obo/CL_0000000 cell A leukocyte with a single non-segmented nucleus in the mature form. http://purl.obolibrary.org/obo/CHEBI_16670 peptide http://purl.obolibrary.org/obo/CHEBI_33839 macromolecule Amide derived from two or more amino carboxylic acid molecules (the same or different) by formation of a covalent bond from the carbonyl carbon of one to the nitrogen atom of another with formal loss of water. The term is usually applied to structures formed from alpha-amino acids, but it includes those derived from any amino carboxylic acid. X = OH, OR, NH2, NHR, etc. http://purl.obolibrary.org/obo/CHEBI_33697 ribonucleic acid http://purl.obolibrary.org/obo/CHEBI_33696 nucleic acid High molecular weight, linear polymers, composed of nucleotides containing ribose and linked by phosphodiester bonds; RNA is central to the synthesis of proteins. http://purl.obolibrary.org/obo/UBERON_0000465 material anatomical entity http://purl.obolibrary.org/obo/BFO_0000040 material entity Anatomical entity that has mass. http://purl.obolibrary.org/obo/UBERON_0000477 anatomical cluster http://purl.obolibrary.org/obo/BFO_0000040 material entity Anatomical group whose component anatomical structures lie in close proximity to each other. http://purl.obolibrary.org/obo/SO_0001410 experimental_feature http://purl.obolibrary.org/obo/SO_0000001 region A region which is the result of some arbitrary experimental procedure. The procedure may be carried out with biological material or inside a computer. http://purl.obolibrary.org/obo/OBI_0003587 cell culture assay http://purl.obolibrary.org/obo/OBI_0000070 assay An assay that has cell culture as an input. http://purl.obolibrary.org/obo/GO_0003674 molecular_function http://purl.obolibrary.org/obo/BFO_0000015 process A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs. These actions are described from two distinct but related perspectives: (1) biochemical activity, and (2) role as a component in a larger system/process. http://purl.obolibrary.org/obo/GO_0003824 catalytic activity http://purl.obolibrary.org/obo/GO_0003674 molecular_function Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic. http://purl.obolibrary.org/obo/GO_0003964 RNA-directed DNA polymerase activity http://purl.obolibrary.org/obo/GO_0003824 catalytic activity Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Catalyzes RNA-template-directed extension of the 3'- end of a DNA strand by one deoxynucleotide at a time. http://purl.obolibrary.org/obo/GO_0008150 biological_process http://purl.obolibrary.org/obo/BFO_0000015 process A biological process represents a specific objective that the organism is genetically programmed to achieve. Biological processes are often described by their outcome or ending state, e.g., the biological process of cell division results in the creation of two daughter cells (a divided cell) from a single parent cell. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence. http://purl.obolibrary.org/obo/IDO_0000450 pathogenic disposition http://purl.obolibrary.org/obo/BFO_0000016 disposition A disposition to initiate processes that result in a disorder. http://purl.obolibrary.org/obo/OBI_0003064 organism detection datum http://purl.obolibrary.org/obo/IAO_0000027 data item A data item that is the specified output of an organism detection assay. http://purl.obolibrary.org/obo/OBI_0003498 organism detection assay http://purl.obolibrary.org/obo/OBI_0000070 assay An assay that detects a type of organism and/or the quantity of individuals of a type of organism. http://purl.obolibrary.org/obo/OBI_0003024 lymphocyte assay http://purl.obolibrary.org/obo/OBI_0001977 cytometry assay A cytometry assay that measures the abundance and/or characteristics of lymphocytes http://purl.obolibrary.org/obo/NCBITaxon_9606 Homo sapiens http://purl.obolibrary.org/obo/NCBITaxon_314146 Euarchontoglires human being http://purl.obolibrary.org/obo/NCBITaxon_2 Bacteria http://purl.obolibrary.org/obo/OBI_0100026 organism eubacteria http://purl.obolibrary.org/obo/NCBITaxon_117571 Euteleostomi http://purl.obolibrary.org/obo/NCBITaxon_7742 Vertebrata bony vertebrates http://purl.obolibrary.org/obo/NCBITaxon_2759 Eukaryota http://purl.obolibrary.org/obo/OBI_0100026 organism eukaryotes http://purl.obolibrary.org/obo/NCBITaxon_32523 Tetrapoda http://purl.obolibrary.org/obo/NCBITaxon_117571 Euteleostomi tetrapods http://purl.obolibrary.org/obo/NCBITaxon_32524 Amniota http://purl.obolibrary.org/obo/NCBITaxon_32523 Tetrapoda amniotes http://purl.obolibrary.org/obo/NCBITaxon_33208 Metazoa http://purl.obolibrary.org/obo/NCBITaxon_33154 Opisthokonta multicellular animals http://purl.obolibrary.org/obo/NCBITaxon_40674 Mammalia http://purl.obolibrary.org/obo/NCBITaxon_32524 Amniota mammals http://purl.obolibrary.org/obo/NCBITaxon_7742 Vertebrata http://purl.obolibrary.org/obo/NCBITaxon_33213 Bilateria vertebrates http://purl.obolibrary.org/obo/BFO_0000008 temporal region http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000011 spatiotemporal region http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000035 process boundary http://purl.obolibrary.org/obo/BFO_0000003 occurrent http://purl.obolibrary.org/obo/BFO_0000141 immaterial entity http://purl.obolibrary.org/obo/BFO_0000004 independent continuant http://purl.obolibrary.org/obo/BFO_0000034 function http://purl.obolibrary.org/obo/BFO_0000016 disposition http://purl.obolibrary.org/obo/BFO_0000016 disposition http://purl.obolibrary.org/obo/BFO_0000017 realizable entity http://purl.obolibrary.org/obo/BFO_0000019 quality http://purl.obolibrary.org/obo/BFO_0000020 specifically dependent continuant http://purl.obolibrary.org/obo/BFO_0000029 site http://purl.obolibrary.org/obo/BFO_0000141 immaterial entity http://purl.obolibrary.org/obo/IAO_0000429 email address http://purl.obolibrary.org/obo/IAO_0000030 information content entity http://purl.obolibrary.org/obo/NCBITaxon_10239 Viruses http://purl.obolibrary.org/obo/OBI_0100026 organism http://purl.obolibrary.org/obo/NCBITaxon_2157 Archaea http://purl.obolibrary.org/obo/OBI_0100026 organism http://purl.obolibrary.org/obo/NCBITaxon_33154 Opisthokonta http://purl.obolibrary.org/obo/NCBITaxon_2759 Eukaryota http://purl.obolibrary.org/obo/NCBITaxon_33213 Bilateria http://purl.obolibrary.org/obo/NCBITaxon_33208 Metazoa http://purl.obolibrary.org/obo/NCBITaxon_314146 Euarchontoglires http://purl.obolibrary.org/obo/NCBITaxon_40674 Mammalia http://purl.obolibrary.org/obo/BFO_0000001 entity http://purl.obolibrary.org/obo/RO_0000079 function of http://purl.obolibrary.org/obo/RO_0000052 inheres in is function of a relation between a function and an independent continuant (the bearer), in which the function specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000085 has function http://purl.obolibrary.org/obo/RO_0000053 bearer of has_function a relation between an independent continuant (the bearer) and a function, in which the function specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0002350 member of http://purl.obolibrary.org/obo/BFO_0000050 part of member part of is member of is a mereological relation between a item and a collection. http://purl.obolibrary.org/obo/RO_0000087 has role http://purl.obolibrary.org/obo/RO_0000053 bearer of has_role a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000081 role of http://purl.obolibrary.org/obo/RO_0000052 inheres in role_of a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/IAO_0000219 denotes http://purl.obolibrary.org/obo/IAO_0000136 is about A primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together. Freedictionary.com sense 3: To signify directly; refer to specifically http://purl.obolibrary.org/obo/IAO_0000221 is quality measurement of http://purl.obolibrary.org/obo/IAO_0000136 is about m is a quality measurement of q at t. When q is a quality, there is a measurement process p that has specified output m, a measurement datum, that is about q http://purl.obolibrary.org/obo/IAO_0000413 is duration of http://purl.obolibrary.org/obo/IAO_0000136 is about relates a process to a time-measurement-datum that represents the duration of the process http://purl.obolibrary.org/obo/OBI_0000107 provides_service_consumer_with http://purl.obolibrary.org/obo/BFO_0000051 has part A relation between a service and the primary processual part of the service that is performed by the provider for the consumer. http://purl.obolibrary.org/obo/OBI_0000293 has_specified_input http://purl.obolibrary.org/obo/RO_0000057 has participant The inverse property of is_specified_input_of http://purl.obolibrary.org/obo/OBI_0000295 is_specified_input_of http://purl.obolibrary.org/obo/RO_0000056 participates in A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of. http://purl.obolibrary.org/obo/OBI_0000299 has_specified_output http://purl.obolibrary.org/obo/RO_0000057 has participant The inverse property of is_specified_output_of http://purl.obolibrary.org/obo/OBI_0000312 is_specified_output_of http://purl.obolibrary.org/obo/RO_0000056 participates in A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of. http://purl.obolibrary.org/obo/OBI_0000643 has grain http://purl.obolibrary.org/obo/BFO_0000051 has part the relation of the cells in the finger of the skin to the finger, in which an indeterminate number of grains are parts of the whole by virtue of being grains in a collective that is part of the whole, and in which removing one granular part does not nec- essarily damage or diminish the whole. Ontological Whether there is a fixed, or nearly fixed number of parts - e.g. fingers of the hand, chambers of the heart, or wheels of a car - such that there can be a notion of a single one being missing, or whether, by contrast, the number of parts is indeterminate - e.g., cells in the skin of the hand, red cells in blood, or rubber molecules in the tread of the tire of the wheel of the car. http://purl.obolibrary.org/obo/OBI_0001937 has specified numeric value http://purl.obolibrary.org/obo/OBI_0002135 has specified value A relation between a value specification and a number that quantifies it. http://purl.obolibrary.org/obo/OBI_0001938 has value specification http://purl.obolibrary.org/obo/BFO_0000051 has part A relation between an information content entity and a value specification that specifies its value. http://purl.obolibrary.org/obo/RO_0002223 starts http://purl.obolibrary.org/obo/RO_0002222 temporal relation inverse of starts with http://purl.obolibrary.org/obo/RO_0002351 has member http://purl.obolibrary.org/obo/BFO_0000051 has part has member is a mereological relation between a collection and an item. http://purl.obolibrary.org/obo/IAO_0000039 has measurement unit label http://purl.obolibrary.org/obo/BFO_0000051 has part http://purl.obolibrary.org/obo/OBI_0000646 provisions supplies A relation between an organisation or person and a material entity, where the organization or person provides or supplies the material entity for others to use http://purl.obolibrary.org/obo/RO_0000052 inheres in inheres_in a relation between a specifically dependent continuant (the dependent) and an independent continuant (the bearer), in which the dependent specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000053 bearer of is bearer of a relation between an independent continuant (the bearer) and a specifically dependent continuant (the dependent), in which the dependent specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000056 participates in participates_in a relation between a continuant and a process, in which the continuant is somehow involved in the process http://purl.obolibrary.org/obo/RO_0000057 has participant has_participant a relation between a process and a continuant, in which the continuant is somehow involved in the process http://purl.obolibrary.org/obo/RO_0001000 derives from derives_from a relation between two distinct material entities, the new entity and the old entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity http://purl.obolibrary.org/obo/RO_0001001 derives into derives_into a relation between two distinct material entities, the old entity and the new entity, in which the new entity begins to exist when the old entity ceases to exist, and the new entity inherits the significant portion of the matter of the old entity http://purl.obolibrary.org/obo/BFO_0000051 has part has_part a core relation that holds between a whole and its part http://purl.obolibrary.org/obo/BFO_0000050 part of part_of a core relation that holds between a part and its whole http://purl.obolibrary.org/obo/OBI_0002135 has specified value A relation between a value specification and a literal. http://purl.obolibrary.org/obo/IAO_0000136 is about A (currently) primitive relation that relates an information artifact to an entity. http://purl.obolibrary.org/obo/IAO_0000417 is quality measured as inverse of the relation of is quality measurement of http://purl.obolibrary.org/obo/OBI_0000124 is_supported_by_data The relation between a data item and a conclusion where the conclusion is the output of a data interpreting process and the data item is used as an input to that process http://purl.obolibrary.org/obo/OBI_0000417 achieves_planned_objective This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process. http://purl.obolibrary.org/obo/OBI_0000647 has_supplier A relation between a material entity and an organisation or person who owned or has license to the material entity and there was a legal transfer of ownership or licensing of the material entity to the current owner. http://purl.obolibrary.org/obo/OBI_0000833 objective_achieved_by This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process. http://purl.obolibrary.org/obo/OBI_0000846 is member of organization Relating a legal person or organization to an organization in the case where the legal person or organization has a role as member of the organization. http://purl.obolibrary.org/obo/OBI_0001688 has organization member Relating an organization to a legal person or organization. http://purl.obolibrary.org/obo/RO_0000058 is concretized as A relationship between a generically dependent continuant and a specifically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants. http://purl.obolibrary.org/obo/RO_0000059 concretizes A relationship between a specifically dependent continuant and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant also depends on that same independent continuant. Multiple specifically dependent continuants can concretize the same generically dependent continuant. http://purl.obolibrary.org/obo/IAO_0000235 denoted by inverse of the relation 'denotes' http://purl.obolibrary.org/obo/BFO_0000054 realized in realized_in http://purl.obolibrary.org/obo/BFO_0000055 realizes http://purl.obolibrary.org/obo/IAO_0000004 has measurement value http://purl.obolibrary.org/obo/RO_0002222 temporal relation