Term IRI Term label Parent term IRI Parent term label Alternative term Definition http://purl.obolibrary.org/obo/IAO_0000027 data item http://purl.obolibrary.org/obo/IAO_0000030 information data a data item is 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/SEPIO_0000001 assertion http://purl.obolibrary.org/obo/SEPIO_0000174 statement propostional assertion A statement made by a particular agent on a particular occasion that a particular proposition is true, based on the evaluation of one or more lines of evidence. http://purl.obolibrary.org/obo/SEPIO_0000002 evidence line http://purl.obolibrary.org/obo/IAO_0000030 information evidence-based argument An evidence line represents an independent and meaningful argument for or against a particular proposition, that is based on the interpretation of one or more pieces of information as evidence. http://purl.obolibrary.org/obo/SEPIO_0000003 assertion process http://purl.obolibrary.org/obo/OBI_0000011 completely executed planned process act of assertion An act of interpreting evidence to make an assertion of belief that a particular proposition is true http://purl.obolibrary.org/obo/SEPIO_0000048 agent role http://purl.obolibrary.org/obo/BFO_0000023 role agent role A role borne by a person, group, organization, or information processing entity (e.g. software, algorithms) in virtue of its active participation in a process leading to some outcome (e.g the generation, modification, or provision of some entity). http://purl.obolibrary.org/obo/SEPIO_0000079 secondary research study http://purl.obolibrary.org/obo/SEPIO_0000125 research study data-driven study A study based only on analysis of existing data, as found in artifacts such as community/curated databases, raw datasets, or publications. http://purl.obolibrary.org/obo/SEPIO_0000143 patient case study http://purl.obolibrary.org/obo/SEPIO_0000066 primary research study case reporting A study that documents observations or findings from a single patent. http://purl.obolibrary.org/obo/SEPIO_0000149 evidence item http://purl.obolibrary.org/obo/IAO_0000030 information evidence information An information content entity that is used as evidence to evaluate the validity of a target assertion or proposition. http://purl.obolibrary.org/obo/SEPIO_0000173 study finding http://purl.obolibrary.org/obo/SEPIO_0000174 statement study outcome A statement describing the immediate results of a research study, describing what was directly observed, measured, or derived through mathematical calculation. http://www.w3.org/ns/prov#Activity Activity http://purl.obolibrary.org/obo/BFO_0000015 process An activity is something that occurs over a period of time and acts upon or with entities; it may include consuming, processing, transforming, modifying, relocating, using, or generating entities. http://purl.obolibrary.org/obo/PATO_0000001 quality http://purl.obolibrary.org/obo/BFO_0000020 characteristic A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities http://www.w3.org/ns/prov#SoftwareAgent SoftwareAgent http://www.w3.org/ns/prov#Agent Agent A software agent is running software. http://purl.obolibrary.org/obo/OBI_0002165 protein localization assay http://purl.obolibrary.org/obo/OBI_0000070 assay An assay that determines the specific location of a protein. Subcellular localization is distinguished from tissue-based localization based on the type of microscopy applied. 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 http://purl.obolibrary.org/obo/BFO_0000020 characteristic 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 characteristic 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 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/IAO_0000013 journal article http://purl.obolibrary.org/obo/IAO_0000311 publication a report that is published in a journal http://purl.obolibrary.org/obo/IAO_0000030 information 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_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_0000088 report http://purl.obolibrary.org/obo/IAO_0000310 document a document assembled by an author for the purpose of providing information for the audience. A report is the output of a documenting process and has the objective to be consumed by a specific audience. Topic of the report is on something that has completed. A report is not a single figure. Examples of reports are journal article, patent application, grant progress report, case report (not patient record) http://purl.obolibrary.org/obo/IAO_0000100 data set http://purl.obolibrary.org/obo/IAO_0000030 information 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_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_0000306 table http://purl.obolibrary.org/obo/IAO_0000030 information A textual entity that contains a two-dimensional arrangement of texts repeated at regular intervals across a spatial range, such that the spatial relationships among the constituent texts expresses propositions http://purl.obolibrary.org/obo/IAO_0000308 figure http://purl.obolibrary.org/obo/IAO_0000030 information An information content entity consisting of a two dimensional arrangement of information content entities such that the arrangement itself is about something. http://purl.obolibrary.org/obo/IAO_0000310 document http://purl.obolibrary.org/obo/IAO_0000030 information 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_0000313 patent http://purl.obolibrary.org/obo/IAO_0000310 document A document that has been accepted by a patent authority 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/OBI_0000011 completely executed planned process http://purl.obolibrary.org/obo/COB_0000082 planned process A processual entity that realizes a plan which is the concretization of a plan specification. http://purl.obolibrary.org/obo/OBI_0000066 investigation http://purl.obolibrary.org/obo/SEPIO_0000004 research activity a planned process that consists of parts: planning, study design execution, documentation and which produce conclusion(s). http://purl.obolibrary.org/obo/OBI_0000175 p-value http://purl.obolibrary.org/obo/STATO_0000039 statistic A quantitative confidence value that represents the probability of obtaining a result at least as extreme as that actually obtained, assuming that the actual value was the result of chance alone. http://purl.obolibrary.org/obo/OBI_0000235 standard error http://purl.obolibrary.org/obo/STATO_0000039 statistic A quantitative confidence value which is the standard deviations of the sample in a frequency distribution, obtained by dividing the standard deviation by the total number of cases in the frequency distribution. 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/SEPIO_0000003 assertion 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_0001146 binding assay http://purl.obolibrary.org/obo/OBI_0000070 assay An assay with the objective to characterize the disposition of two or more material entities to form a complex. http://purl.org/oban/association association http://purl.obolibrary.org/obo/SEPIO_0000000 proposition Associations are a form of proposition, framed as a tuple linking two (or more) entities through defined relationships. http://purl.obolibrary.org/obo/STATO_0000039 statistic http://purl.obolibrary.org/obo/IAO_0000027 data item a statistic is a measurement datum to describe a dataset or a variable. It is generated by a calculation on set of observed data. http://purl.obolibrary.org/obo/STATO_0000104 z-score http://purl.obolibrary.org/obo/STATO_0000039 statistic A z-score (also known as z-value, standard score, or normal score) is a measure of the divergence of an individual experimental result from the most probable result, the mean. Z is expressed in terms of the number of standard deviations from the mean value. http://purl.obolibrary.org/obo/SEPIO_0000400 study data set http://purl.obolibrary.org/obo/IAO_0000100 data set A data set comprised of data items produced by a single research study. http://purl.obolibrary.org/obo/SEPIO_0000402 evidence direction http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A data item that indicates an agent's assessment of whether an evidence line supports or disputes a target proposition (or represents inconclusive evidence that is not sufficient for either). http://purl.obolibrary.org/obo/SEPIO_0000414 evidence quality http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A data item that indicates the quality of the data used as evidence by an agent making an assertion. http://purl.obolibrary.org/obo/SEPIO_000383 record http://purl.obolibrary.org/obo/IAO_0000310 document A document containing a collection of data or statements about some entity. http://www.w3.org/ns/prov#Agent Agent http://purl.obolibrary.org/obo/BFO_0000040 material entity An agent is something that bears some form of responsibility for an activity taking place, for the existence of an entity, or for another agent's activity. http://purl.obolibrary.org/obo/GO_0016301 kinase activity http://purl.obolibrary.org/obo/GO_0003674 molecular_function Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule. http://purl.obolibrary.org/obo/ERO_0001716 database http://purl.obolibrary.org/obo/IAO_0000030 information A database is an organized collection of data, today typically in digital form. http://purl.obolibrary.org/obo/COB_0000082 planned process http://purl.obolibrary.org/obo/BFO_0000015 process A process that is initiated by an agent who intends to carry out a plan to achieve an objective through one or more actions as described in a plan specification. http://purl.obolibrary.org/obo/CARO_0000000 anatomical entity http://purl.obolibrary.org/obo/BFO_0000004 independent continuant A part of a cellular organism that is either an immaterial entity or a material entity with granularity above the level of a protein complex. Or, a substance produced by a cellular organism with granularity above the level of a protein complex. http://www.w3.org/2004/02/skos/core#Concept Concept http://purl.obolibrary.org/obo/SEPIO_0000340 skos terms An idea or notion; a unit of thought. http://purl.obolibrary.org/obo/SEPIO_0000000 proposition http://purl.obolibrary.org/obo/BFO_0000001 entity An abstract entity representing the sharable meaning of what is expressed in a particular assertion. http://purl.obolibrary.org/obo/SEPIO_0000004 research activity http://purl.obolibrary.org/obo/OBI_0000011 completely executed planned process A planned process executed in the performance of scientific research wherein systematic investigations are performed to establish facts and reach new conclusions about phenomena in the world. http://purl.obolibrary.org/obo/SEPIO_0000049 resource role http://purl.obolibrary.org/obo/BFO_0000023 role A role inhering in any material or information artifact that is used by an agent as specified input into a planned process. http://purl.obolibrary.org/obo/SEPIO_0000058 provenance http://purl.obolibrary.org/obo/BFO_0000182 history The process history leading to the creation and current condition of an artifact. http://purl.obolibrary.org/obo/SEPIO_0000066 primary research study http://purl.obolibrary.org/obo/SEPIO_0000125 research study A study that involves primary research of subjects or specimens in a natural, cliniclal, or laboratory setting. http://purl.obolibrary.org/obo/SEPIO_0000067 clinical study http://purl.obolibrary.org/obo/SEPIO_0000066 primary research study Formal clinical study performed using cohorts of multiple patients http://purl.obolibrary.org/obo/SEPIO_0000072 experimental model study http://purl.obolibrary.org/obo/SEPIO_0000066 primary research study A research dtudy perfomred using an experimental model system such as a cell line, or model organism. http://purl.obolibrary.org/obo/SEPIO_0000080 literature-based study http://purl.obolibrary.org/obo/SEPIO_0000079 secondary research study A curation-based study that uses only one or more literature publication as input data source. http://purl.obolibrary.org/obo/SEPIO_0000102 reference population data study http://purl.obolibrary.org/obo/SEPIO_0000079 secondary research study A study based on analysis of data gathered from baseline studies of a population group of apparently unaffected individuals to assess allele frequencies http://purl.obolibrary.org/obo/SEPIO_0000125 research study http://purl.obolibrary.org/obo/SEPIO_0000004 research activity A planned process that executes some study design or protocol to generate scientific data that is interpreted to test or generate a hypothesis. http://purl.obolibrary.org/obo/SEPIO_0000131 curation http://purl.obolibrary.org/obo/SEPIO_0000004 research activity A planned process in which existing data is collected, organized, and improved in preparation for subsequent use. http://purl.obolibrary.org/obo/SEPIO_0000133 evidence strength http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A data item that quantifies the degree of support an agent believes an evidence line to provide for a particular proposition. http://purl.obolibrary.org/obo/SEPIO_0000158 contribution http://purl.obolibrary.org/obo/OBI_0000011 completely executed planned process The actions taken by a particular agent in the creation, modification, assessment, or deprecation of an artifact. http://purl.obolibrary.org/obo/SEPIO_0000174 statement http://purl.obolibrary.org/obo/IAO_0000030 information An information content entity expressing a declarative sentence that is either true or false. http://purl.obolibrary.org/obo/SEPIO_0000186 patient phenotyping study http://purl.obolibrary.org/obo/SEPIO_0000070 observational clinical study A study with the goal of assessing and documenting phenotypes exhibited by one or more patients. http://purl.obolibrary.org/obo/SEPIO_0000187 confidence level http://purl.obolibrary.org/obo/IAO_0000109 measurement datum A measurement datum that quantifies the level of confidence an agent has that a particular piece of information is true. http://purl.obolibrary.org/obo/SEPIO_0000037 assertion method http://purl.obolibrary.org/obo/IAO_0000104 plan specification A directive information entity that specifies an algorithm or heuristics for evaluating evidence in the process of making an assertion. http://www.w3.org/ns/prov#Organization Organization http://xmlns.com/foaf/0.1/Group Group An organization is a social or legal institution such as a company, society, etc. http://www.w3.org/ns/prov#Person Person http://www.w3.org/ns/prov#Agent Agent Person agents are people. http://purl.obolibrary.org/obo/SEPIO_0000078 organism-based in vivo study http://purl.obolibrary.org/obo/SEPIO_0000074 in vivo study whole organism in vivo study http://purl.obolibrary.org/obo/SEPIO_0000155 approver role http://purl.obolibrary.org/obo/SEPIO_0000154 assessor role validator role http://purl.obolibrary.org/obo/OBI_0000260 plan http://purl.obolibrary.org/obo/BFO_0000017 realizable http://purl.obolibrary.org/obo/BFO_0000182 history http://purl.obolibrary.org/obo/BFO_0000015 process 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 http://purl.obolibrary.org/obo/COB_0000120 information representation http://purl.obolibrary.org/obo/BFO_0000020 characteristic http://purl.obolibrary.org/obo/BFO_0000019 quality http://purl.obolibrary.org/obo/BFO_0000020 characteristic http://purl.obolibrary.org/obo/COB_0000119 evaluant role http://purl.obolibrary.org/obo/BFO_0000023 role http://purl.obolibrary.org/obo/SEPIO_0000148 evidence role http://purl.obolibrary.org/obo/BFO_0000023 role http://purl.obolibrary.org/obo/COB_0000122 physical information carrier http://purl.obolibrary.org/obo/BFO_0000040 material entity http://purl.obolibrary.org/obo/COB_0000121 measurement datum http://purl.obolibrary.org/obo/IAO_0000027 data item http://purl.obolibrary.org/obo/IAO_0000033 directive information entity http://purl.obolibrary.org/obo/IAO_0000030 information http://purl.obolibrary.org/obo/IAO_0000005 objective specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity http://purl.obolibrary.org/obo/COB_0000077 action specification http://purl.obolibrary.org/obo/IAO_0000033 directive information entity http://xmlns.com/foaf/0.1/Group Group http://www.w3.org/ns/prov#Agent Agent http://purl.obolibrary.org/obo/OBI_0000070 assay http://purl.obolibrary.org/obo/SEPIO_0000004 research activity http://purl.obolibrary.org/obo/SEPIO_0000153 creator role http://purl.obolibrary.org/obo/SEPIO_0000048 agent role http://purl.obolibrary.org/obo/SEPIO_0000154 assessor role http://purl.obolibrary.org/obo/SEPIO_0000048 agent role http://purl.obolibrary.org/obo/SEPIO_0000156 curator role http://purl.obolibrary.org/obo/SEPIO_0000048 agent role http://purl.obolibrary.org/obo/SEPIO_0000069 interventional clinical study http://purl.obolibrary.org/obo/SEPIO_0000067 clinical study http://purl.obolibrary.org/obo/SEPIO_0000070 observational clinical study http://purl.obolibrary.org/obo/SEPIO_0000067 clinical study http://purl.obolibrary.org/obo/SEPIO_0000071 case-control clinical study http://purl.obolibrary.org/obo/SEPIO_0000070 observational clinical study http://purl.obolibrary.org/obo/SEPIO_0000258 provider interpretation http://purl.obolibrary.org/obo/SEPIO_0000070 observational clinical study http://purl.obolibrary.org/obo/SEPIO_0000073 in vitro study http://purl.obolibrary.org/obo/SEPIO_0000072 experimental model study http://purl.obolibrary.org/obo/SEPIO_0000074 in vivo study http://purl.obolibrary.org/obo/SEPIO_0000072 experimental model study http://purl.obolibrary.org/obo/SEPIO_0000076 cell-based in vivo study http://purl.obolibrary.org/obo/SEPIO_0000074 in vivo study http://purl.obolibrary.org/obo/SEPIO_0000077 tissue-based in vivo study http://purl.obolibrary.org/obo/SEPIO_0000074 in vivo study http://purl.obolibrary.org/obo/SEPIO_0000081 curation-based study http://purl.obolibrary.org/obo/SEPIO_0000079 secondary research study http://purl.obolibrary.org/obo/SEPIO_0000431 recommendation http://purl.obolibrary.org/obo/SEPIO_0000174 statement http://purl.obolibrary.org/obo/SEPIO_0000432 hypothesis http://purl.obolibrary.org/obo/SEPIO_0000174 statement http://purl.obolibrary.org/obo/SEPIO_0000181 obsolete_evidence data evidence datum Research data, or a product derived from research data such as data sets or figures, that are used as evidence to evaluate the validity of a target assertion or proposition. http://purl.obolibrary.org/obo/STATO_0000184 obsolete_ratio A ratio is a data item which is formed with two numbers r and s is written r/s, where r is the numerator and s is the denominator. The ratio of r to s is equivalent to the quotient r/s. http://purl.obolibrary.org/obo/SEPIO_0000401 obsolete_opinion A declarative sentence that expresses a belief or judgement that is not necessarily based on fact or knowledge. http://purl.obolibrary.org/obo/GO_0003674 molecular_function 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_0008150 biological_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/SEPIO_0000056 obsolete_automated assertion process An assertion process performed through algorithmic analysis by a computational agent, independent of human review. http://purl.obolibrary.org/obo/SEPIO_0000127 obsolete_study group A group of individuals (organisms, specimens, samples) that are subjects in an observational or intervention study, and whose members represent experimental replicates as defined in a study design by the same independent variable specifications (i.e. subjected to the same selction criteria or set of experimental interventions). http://purl.obolibrary.org/obo/SEPIO_0000175 obsolete_observation A statement describing something that was observed or recorded. http://purl.obolibrary.org/obo/SEPIO_0000180 obsolete_evidence statement A statement (ie an assertion or finding) that is used as evidence to evaluate the validity of a target assertion or proposition. http://purl.obolibrary.org/obo/SEPIO_0000340 skos terms Organizational class that groups classes imported from the skos model to support creation and definition of value sets for particular SEPIO data model implementations. http://purl.obolibrary.org/obo/SEPIO_0000385 obsolete_method plan specification http://purl.obolibrary.org/obo/SEPIO_0000185 obsolete_data table A set of data arranged in rows and columns. http://purl.obolibrary.org/obo/BFO_0000001 entity http://purl.obolibrary.org/obo/SEPIO_0000055 obsolete_manual assertion process http://purl.obolibrary.org/obo/SEPIO_0000157 obsolete software agent http://purl.obolibrary.org/obo/RO_0002234 has output http://purl.obolibrary.org/obo/RO_0000057 has participant produces p has output c iff c is a participant in p, c is present at the end of p, and c is not present in the same state at the beginning of p. http://purl.obolibrary.org/obo/SEPIO_0000124 evidence_has_supporting_reference http://purl.obolibrary.org/obo/RO_0002614 is_evidence_with_support_from has_support_from_source A relation that holds between an evidence line and a citable document from which information supporting the evidence line was obtained (i.e. a "supporting reference"). http://purl.obolibrary.org/obo/RO_0000052 characteristic of http://purl.obolibrary.org/obo/RO_0002314 characteristic of part of inheres_in a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence. http://purl.obolibrary.org/obo/RO_0000079 function of http://purl.obolibrary.org/obo/RO_0000052 characteristic of 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_0000080 quality of http://purl.obolibrary.org/obo/RO_0000052 characteristic of quality_of a relation between a quality and an independent continuant (the bearer), in which the quality specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000085 has function http://purl.obolibrary.org/obo/RO_0000053 has characteristic 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_0000086 has quality http://purl.obolibrary.org/obo/RO_0000053 has characteristic has_quality a relation between an independent continuant (the bearer) and a quality, in which the quality 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/SEPIO_0000085 evidence_has_supporting_activity http://purl.obolibrary.org/obo/RO_0002614 is_evidence_with_support_from has_supporting_activity A relation that links an evidence line to any activities (studies, assays, computational tasks, curation) that generated evidence items contributing to it. http://purl.obolibrary.org/obo/BFO_0000051 has part http://purl.obolibrary.org/obo/RO_0002131 overlaps has_part a core relation that holds between a whole and its part http://purl.obolibrary.org/obo/RO_0000087 has role http://purl.obolibrary.org/obo/RO_0000053 has characteristic 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_0002327 enables http://purl.obolibrary.org/obo/RO_0002215 capable of is executing c enables p iff c is capable of p and c acts to execute p. http://purl.obolibrary.org/obo/RO_0002409 indirectly negatively regulates http://purl.obolibrary.org/obo/RO_0012012 indirectly regulates indirectly inhibits p indirectly negatively regulates q iff p is indirectly causally upstream of q and p negatively regulates q. http://purl.obolibrary.org/obo/RO_0002436 molecularly interacts with http://purl.obolibrary.org/obo/RO_0002434 interacts with molecularly binds with An interaction relationship in which the two partners are molecular entities that directly physically interact with each other for example via a stable binding interaction or a brief interaction during which one modifies the other. http://purl.obolibrary.org/obo/RO_0002449 directly negatively regulates activity of http://purl.obolibrary.org/obo/RO_0002448 directly regulates activity of directly inhibits The entity A, immediately upstream of the entity B, has an activity that negatively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A negatively regulates the kinase activity of B. http://purl.obolibrary.org/obo/BFO_0000062 preceded by http://purl.obolibrary.org/obo/RO_0002086 ends after preceded_by x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. http://purl.obolibrary.org/obo/RO_0000081 role of http://purl.obolibrary.org/obo/RO_0000052 characteristic of 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/BFO_0000050 part of http://purl.obolibrary.org/obo/RO_0002131 overlaps part_of a core relation that holds between a part and its whole http://purl.obolibrary.org/obo/RO_0002233 has input http://purl.obolibrary.org/obo/RO_0000057 has participant consumes p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p. http://purl.obolibrary.org/obo/RO_0002314 characteristic of part of http://purl.obolibrary.org/obo/RO_0002502 depends on inheres in part of q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w. http://purl.obolibrary.org/obo/RO_0002215 capable of http://purl.obolibrary.org/obo/RO_0002216 capable of part of has function realized in A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process http://purl.obolibrary.org/obo/RO_0002331 involved in http://purl.obolibrary.org/obo/RO_0002431 involved in or involved in regulation of enables part of c involved_in p if and only if c enables some process p', and p' is part of p http://purl.obolibrary.org/obo/RO_0002431 involved in or involved in regulation of http://purl.obolibrary.org/obo/RO_0002500 causal agent in process involved in or reguates c involved in or regulates p if and only if either (i) c is involved in p or (ii) c is involved in regulation of p http://purl.obolibrary.org/obo/SEPIO_0000008 has_disputing_evidence_line http://purl.obolibrary.org/obo/SEPIO_0000006 has_evidence_line has_refuting_evidence_line A relation between a proposition and information that contradicts its validity, based on the evaluation and conclusion of some agent. http://purl.obolibrary.org/obo/SEPIO_0000009 has_inconclusive_evidence_line http://purl.obolibrary.org/obo/SEPIO_0000006 has_evidence_line has_insignificant_evidence_line A relation between a proposition and information that was used to evaluate a particular proposition, but failed to provide conclusive support for or against its validity. http://purl.obolibrary.org/obo/SEPIO_0000036 date_modified http://purl.org/dc/terms/date date date_last_updated The date that a particular resource or artifact was last modified or updated. http://purl.obolibrary.org/obo/SEPIO_0000084 has_evidence_item http://purl.obolibrary.org/obo/RO_0002614 is_evidence_with_support_from has_supporting_information A relation holding between an evidence line and an individual information entity that contributes to the argument it represents. http://purl.obolibrary.org/obo/SEPIO_0000140 evaluated_by http://purl.obolibrary.org/obo/SEPIO_0000150 has_contributor assessed_by A relation holding between a generated artifact and an agent who evaluated its quality, completeness, or utility. http://purl.obolibrary.org/obo/SEPIO_0000151 validated_by http://purl.obolibrary.org/obo/SEPIO_0000150 has_contributor validity_assessed_by A relation holding between a statement and an agent that validates its truth or accuracy - typically by reviewing the provenance and data on which it is based. http://purl.obolibrary.org/obo/SEPIO_0000257 describes_study_data http://purl.obolibrary.org/obo/IAO_0000136 is_about describes_supporting_data A relation that holds between a study finding and a data item it describes (i.e. a data item generated by the study whose results are described by the finding). http://purl.obolibrary.org/obo/RO_0002216 capable of part of http://purl.obolibrary.org/obo/RO_0002500 causal agent in process has function in c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p. http://purl.obolibrary.org/obo/RO_0002329 part of structure that is capable of http://purl.obolibrary.org/obo/RO_0002328 functionally related to 0 this relation holds between c and p when c is part of some c', and c' is capable of p. http://purl.obolibrary.org/obo/RO_0002418 causally upstream of or within http://purl.obolibrary.org/obo/RO_0002501 causal relation between processes influences (processual) p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q. http://purl.obolibrary.org/obo/RO_0002407 indirectly positively regulates http://purl.obolibrary.org/obo/RO_0012012 indirectly regulates indirectly activates p indirectly positively regulates q iff p is indirectly causally upstream of q and p positively regulates q. http://purl.obolibrary.org/obo/RO_0002450 directly positively regulates activity of http://purl.obolibrary.org/obo/RO_0002448 directly regulates activity of directly activates The entity A, immediately upstream of the entity B, has an activity that positively regulates an activity performed by B. For example, A and B may be gene products and binding of B by A positively regulates the kinase activity of B. http://purl.obolibrary.org/obo/RO_0002614 is_evidence_with_support_from http://purl.obolibrary.org/obo/RO_0002616 related via evidence or inference to is_evidence_supported_by A relationship between a piece of evidence and an entity that plays a role in supporting that evidence. http://purl.obolibrary.org/obo/RO_0004028 realized in response to stimulus http://purl.obolibrary.org/obo/RO_0002410 causally related to A relationship between a realizable entity R (e.g. function or disposition) and a material entity M where R is realized in response to a process that has an input stimulus of M. http://purl.obolibrary.org/obo/SEPIO_0000389 has_predicate http://purl.obolibrary.org/obo/IAO_0000136 is_about A relation that holds between a statement or proposition which can be captured in part or in whole as a directional relationship between two entities, and the property serving as the predicate in this relationship. http://purl.obolibrary.org/obo/SEPIO_0000436 date_created http://purl.org/dc/terms/date date Date that a particular representation/manifestation of an information content entity was created - e.g. as a web resource or digital artifact. To describe the date that the information content carried by a digital artifact or resource as generated, use the 'date_authored' property. http://purl.obolibrary.org/obo/RO_0002025 has effector activity http://purl.obolibrary.org/obo/RO_0002017 has component activity A 'has effector activity' B if A and B are GO molecular functions (GO_0003674), A 'has component activity' B and B is the effector (output function) of B. Each compound function has only one effector activity. http://purl.obolibrary.org/obo/RO_0002258 developmentally preceded by http://purl.obolibrary.org/obo/RO_0002324 developmentally related to Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p http://purl.obolibrary.org/obo/RO_0002286 developmentally succeeded by http://purl.obolibrary.org/obo/RO_0002384 has developmental potential involving Inverse of developmentally preceded by http://purl.obolibrary.org/obo/RO_0002384 has developmental potential involving http://purl.obolibrary.org/obo/RO_0002324 developmentally related to x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction). http://purl.obolibrary.org/obo/RO_0002388 has potential to directly develop into http://purl.obolibrary.org/obo/RO_0002387 has potential to develop into x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y http://purl.obolibrary.org/obo/BFO_0000063 precedes http://purl.obolibrary.org/obo/RO_0002222 temporally related to x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point. 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/RO_0002018 has component process http://purl.obolibrary.org/obo/RO_0002180 has component w 'has process component' p if p and w are processes, w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. http://purl.obolibrary.org/obo/RO_0019000 regulates characteristic http://purl.obolibrary.org/obo/RO_0002410 causally related to A relationship that holds between a process and a characteristic in which process (P) regulates characteristic (C) iff: P results in the existence of C OR affects the intensity or magnitude of C. http://purl.obolibrary.org/obo/RO_0019001 positively regulates characteristic http://purl.obolibrary.org/obo/RO_0019000 regulates characteristic A relationship that holds between a process and a characteristic in which process (P) positively regulates characteristic (C) iff: P results in an increase in the intensity or magnitude of C. http://purl.obolibrary.org/obo/RO_0019002 negatively regulates characteristic http://purl.obolibrary.org/obo/RO_0019000 regulates characteristic A relationship that holds between a process and a characteristic in which process (P) negatively regulates characteristic (C) iff: P results in a decrease in the intensity or magnitude of C. http://purl.obolibrary.org/obo/RO_0002202 develops from http://purl.obolibrary.org/obo/RO_0002258 developmentally preceded by x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y http://purl.obolibrary.org/obo/RO_0002333 enabled by http://purl.obolibrary.org/obo/RO_0002328 functionally related to inverse of enables http://purl.obolibrary.org/obo/RO_0002404 causally downstream of http://purl.obolibrary.org/obo/RO_0002427 causally downstream of or within inverse of upstream of http://purl.obolibrary.org/obo/RO_0002412 immediately causally upstream of http://purl.obolibrary.org/obo/RO_0002411 causally upstream of p is immediately causally upstream of q iff p is causally upstream of q, and the end of p is coincident with the beginning of q. http://purl.obolibrary.org/obo/RO_0002448 directly regulates activity of http://purl.obolibrary.org/obo/RO_0011002 regulates activity of The entity A, immediately upstream of the entity B, has an activity that regulates an activity performed by B. For example, A and B may be gene products and binding of B by A regulates the kinase activity of B. A and B can be physically interacting but not necessarily. Immediately upstream means there are no intermediate entity between A and B. http://purl.obolibrary.org/obo/RO_0002566 causally influences http://purl.obolibrary.org/obo/RO_0002506 causal relation between entities The entity or characteristic A is causally upstream of the entity or characteristic B, A having an effect on B. An entity corresponds to any biological type of entity as long as a mass is measurable. A characteristic corresponds to a particular specificity of an entity (e.g., phenotype, shape, size). http://purl.obolibrary.org/obo/RO_0002263 acts upstream of http://purl.obolibrary.org/obo/RO_0002264 acts upstream of or within c acts upstream of p if and only if c enables some f that is involved in p' and p' occurs chronologically before p, is not part of p, and affects the execution of p. c is a material entity and f, p, p' are processes. http://purl.obolibrary.org/obo/RO_0002304 causally upstream of, positive effect http://purl.obolibrary.org/obo/RO_0004047 causally upstream of or within, positive effect p is causally upstream of, positive effect q iff p is casually upstream of q, and the execution of p is required for the execution of q. http://purl.obolibrary.org/obo/RO_0002305 causally upstream of, negative effect http://purl.obolibrary.org/obo/RO_0004046 causally upstream of or within, negative effect p is causally upstream of, negative effect q iff p is casually upstream of q, and the execution of p decreases the execution of q. http://purl.obolibrary.org/obo/RO_0002131 overlaps http://purl.obolibrary.org/obo/RO_0002323 mereotopologically related to x overlaps y if and only if there exists some z such that x has part z and z part of y http://purl.obolibrary.org/obo/RO_0002254 has developmental contribution from http://purl.obolibrary.org/obo/RO_0002258 developmentally preceded by x has developmental contribution from y iff x has some part z such that z develops from y http://purl.obolibrary.org/obo/RO_0000091 has disposition http://purl.obolibrary.org/obo/RO_0000053 has characteristic a relation between an independent continuant (the bearer) and a disposition, in which the disposition specifically depends on the bearer for its existence http://purl.obolibrary.org/obo/RO_0000092 disposition of http://purl.obolibrary.org/obo/RO_0000052 characteristic of inverse of has disposition http://purl.obolibrary.org/obo/RO_0011002 regulates activity of http://purl.obolibrary.org/obo/RO_0002566 causally influences The entity A has an activity that regulates an activity of the entity B. For example, A and B are gene products where the catalytic activity of A regulates the kinase activity of B. http://purl.obolibrary.org/obo/RO_0002411 causally upstream of http://purl.obolibrary.org/obo/RO_0002418 causally upstream of or within p is causally upstream of q iff p is causally related to q, the end of p precedes the end of q, and p is not an occurrent part of q. http://purl.obolibrary.org/obo/RO_0002211 regulates http://purl.obolibrary.org/obo/RO_0002411 causally upstream of p regulates q iff p is causally upstream of q, the execution of p is not constant and varies according to specific conditions, and p influences the rate or magnitude of execution of q due to an effect either on some enabler of q or some enabler of a part of q. http://purl.obolibrary.org/obo/RO_0002212 negatively regulates http://purl.obolibrary.org/obo/RO_0002211 regulates p negatively regulates q iff p regulates q, and p decreases the rate or magnitude of execution of q. http://purl.obolibrary.org/obo/RO_0002213 positively regulates http://purl.obolibrary.org/obo/RO_0002211 regulates p positively regulates q iff p regulates q, and p increases the rate or magnitude of execution of q. http://purl.obolibrary.org/obo/RO_0002180 has component http://purl.obolibrary.org/obo/BFO_0000051 has part w 'has component' p if w 'has part' p and w is such that it can be directly disassembled into into n parts p, p2, p3, ..., pn, where these parts are of similar type. http://purl.obolibrary.org/obo/RO_0002352 input of http://purl.obolibrary.org/obo/RO_0002328 functionally related to inverse of has input http://purl.obolibrary.org/obo/RO_0002353 output of http://purl.obolibrary.org/obo/RO_0002328 functionally related to inverse of has output http://purl.obolibrary.org/obo/RO_0002203 develops into http://purl.obolibrary.org/obo/RO_0002387 has potential to develop into inverse of develops from http://purl.obolibrary.org/obo/RO_0002387 has potential to develop into http://purl.obolibrary.org/obo/RO_0002384 has developmental potential involving x has the potential to develop into y iff x develops into y or if x is capable of developing into y http://purl.obolibrary.org/obo/RO_0002023 directly negatively regulated by http://purl.obolibrary.org/obo/RO_0002022 directly regulated by Process(P2) is directly negatively regulated by process(P1) iff: P1 negatively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding negatively regulates the kinase activity (P2) of protein B then P2 directly negatively regulated by P1. http://purl.obolibrary.org/obo/RO_0002024 directly positively regulated by http://purl.obolibrary.org/obo/RO_0002022 directly regulated by Process(P2) is directly postively regulated by process(P1) iff: P1 positively regulates P2 via direct physical interaction between an agent executing P1 (or some part of P1) and an agent executing P2 (or some part of P2). For example, if protein A has protein binding activity(P1) that targets protein B and this binding positively regulates the kinase activity (P2) of protein B then P2 is directly postively regulated by P1. http://purl.obolibrary.org/obo/SEPIO_0000438 has_supporting_evidence_from_source http://purl.obolibrary.org/obo/SEPIO_0000145 has_evidence_from_source A relation used to link an assertion or proposition to a source where supporting evidence for it was found (i.e. a document, document part, database, etc) http://purl.obolibrary.org/obo/RO_0012011 indirectly causally upstream of http://purl.obolibrary.org/obo/RO_0002411 causally upstream of p is indirectly causally upstream of q iff p is causally upstream of q and there exists some process r such that p is causally upstream of r and r is causally upstream of q. http://purl.obolibrary.org/obo/RO_0012012 indirectly regulates http://purl.obolibrary.org/obo/RO_0012011 indirectly causally upstream of p indirectly regulates q iff p is indirectly causally upstream of q and p regulates q. http://purl.obolibrary.org/obo/RO_0002264 acts upstream of or within http://purl.obolibrary.org/obo/RO_0002500 causal agent in process c acts upstream of or within p if c is enables f, and f is causally upstream of or within p. c is a material entity and p is an process. http://purl.obolibrary.org/obo/RO_0004031 enables subfunction http://purl.obolibrary.org/obo/RO_0002328 functionally related to Holds between an entity and an process P where the entity enables some larger compound process, and that larger process has-part P. http://purl.obolibrary.org/obo/RO_0004034 acts upstream of, positive effect http://purl.obolibrary.org/obo/RO_0004032 acts upstream of or within, positive effect c 'acts upstream of, positive effect' p if c is enables f, and f is causally upstream of p, and the direction of f is positive http://purl.obolibrary.org/obo/RO_0004035 acts upstream of, negative effect http://purl.obolibrary.org/obo/RO_0004033 acts upstream of or within, negative effect c 'acts upstream of, negative effect' p if c is enables f, and f is causally upstream of p, and the direction of f is negative http://purl.org/pav/importedFrom Imported from http://purl.org/dc/terms/source source The original source of imported information. Import means that the content has been preserved, but transcribed somehow, for instance to fit a different representation model by converting formats. Examples of import are when the original was JSON and the current resource is RDF, or where the original was an document scan, and this resource is the plain text found through OCR. The imported resource does not have to be complete, but should be consistent with the knowledge conveyed by the original resource. If additional knowledge has been contributed, pav:derivedFrom would be more appropriate. If the resource has been copied verbatim from the original representation (e.g. downloaded), use pav:retrievedFrom. To indicate which agent(s) performed the import, use pav:importedBy. Use pav:importedOn to indicate when it happened. http://purl.obolibrary.org/obo/SEPIO_0000007 has_supporting_evidence_line http://purl.obolibrary.org/obo/SEPIO_0000006 has_evidence_line A relation between a proposition and information that supports its validity, based on the evaluation of some agent. http://purl.obolibrary.org/obo/SEPIO_0000040 date_evaluated http://purl.org/dc/terms/date date The date that a particular resource or artifact was last evaluated - typically to assess its quality, completeness, accuracy, conformance, etc. http://purl.obolibrary.org/obo/SEPIO_0000051 date_submitted http://purl.org/dc/terms/date date The date that a particular resource or artifact was formally submitted to be reviewed and/or included in some larger resource (e.g. database, registry, collection, etc.). http://purl.obolibrary.org/obo/SEPIO_0000114 measures_parameter http://purl.obolibrary.org/obo/SEPIO_0000406 ExploratoryObjectProperty A relation between a planned process and a parameter that it measures as part of an assay or observation. http://purl.obolibrary.org/obo/SEPIO_0000130 authored_by http://purl.obolibrary.org/obo/SEPIO_0000150 has_contributor A relation between an information content entity (or concrete manifestation of it as a particular resource/digital artifact), and the agent that originally generated the information content. http://purl.obolibrary.org/obo/SEPIO_0000135 date_authored http://purl.org/dc/terms/date date A relation holding between an information content entity and the date on which the information it expresses was initially generated. http://purl.obolibrary.org/obo/SEPIO_0000144 has_qualifier http://purl.obolibrary.org/obo/IAO_0000136 is_about A relation used to indicate context in which a particular assertion or proposition applies. http://purl.obolibrary.org/obo/SEPIO_0000165 date_validated http://purl.org/dc/terms/date date The date that a particular resource or digital artifact was formally validated as meeting some standard for quality, completeness, relevance, etc.. http://purl.obolibrary.org/obo/RO_0002255 developmentally contributes to http://purl.obolibrary.org/obo/RO_0002385 has potential to developmentally contribute to inverse of has developmental contribution from http://purl.obolibrary.org/obo/RO_0002334 regulated by http://purl.obolibrary.org/obo/RO_0002427 causally downstream of or within inverse of regulates http://purl.obolibrary.org/obo/RO_0002335 negatively regulated by http://purl.obolibrary.org/obo/RO_0002334 regulated by inverse of negatively regulates http://purl.obolibrary.org/obo/RO_0002336 positively regulated by http://purl.obolibrary.org/obo/RO_0002334 regulated by inverse of positively regulates http://purl.obolibrary.org/obo/RO_0002385 has potential to developmentally contribute to http://purl.obolibrary.org/obo/RO_0002384 has developmental potential involving x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y http://purl.obolibrary.org/obo/RO_0002427 causally downstream of or within http://purl.obolibrary.org/obo/RO_0002501 causal relation between processes inverse of causally upstream of or within http://purl.obolibrary.org/obo/RO_0002500 causal agent in process http://purl.obolibrary.org/obo/RO_0002595 causal relation between material entity and a process A relationship between a material entity and a process where the material entity has some causal role that influences the process http://purl.obolibrary.org/obo/RO_0002501 causal relation between processes http://purl.obolibrary.org/obo/RO_0002410 causally related to p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q. http://purl.obolibrary.org/obo/RO_0002584 has part structure that is capable of http://purl.obolibrary.org/obo/RO_0002595 causal relation between material entity and a process s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p http://purl.obolibrary.org/obo/RO_0002595 causal relation between material entity and a process http://purl.obolibrary.org/obo/RO_0002410 causally related to A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity. http://purl.obolibrary.org/obo/RO_0002596 capable of regulating http://purl.obolibrary.org/obo/RO_0002500 causal agent in process Holds between c and p if and only if c is capable of some activity a, and a regulates p. http://purl.obolibrary.org/obo/RO_0002597 capable of negatively regulating http://purl.obolibrary.org/obo/RO_0002596 capable of regulating Holds between c and p if and only if c is capable of some activity a, and a negatively regulates p. http://purl.obolibrary.org/obo/RO_0002598 capable of positively regulating http://purl.obolibrary.org/obo/RO_0002596 capable of regulating Holds between c and p if and only if c is capable of some activity a, and a positively regulates p. http://purl.obolibrary.org/obo/RO_0002608 process has causal agent http://purl.obolibrary.org/obo/RO_0002410 causally related to Inverse of 'causal agent in process' http://purl.obolibrary.org/obo/RO_0002015 has positive regulatory component activity http://purl.obolibrary.org/obo/RO_0002013 has regulatory component activity A relationship that holds between a GO molecular function and a component of that molecular function that positively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is positively regulated by B. http://purl.obolibrary.org/obo/RO_0002013 has regulatory component activity http://purl.obolibrary.org/obo/RO_0002017 has component activity A 'has regulatory component activity' B if A and B are GO molecular functions (GO_0003674), A has_component B and A is regulated by B. http://purl.obolibrary.org/obo/RO_0002014 has negative regulatory component activity http://purl.obolibrary.org/obo/RO_0002013 has regulatory component activity A relationship that holds between a GO molecular function and a component of that molecular function that negatively regulates the activity of the whole. More formally, A 'has regulatory component activity' B iff :A and B are GO molecular functions (GO_0003674), A has_component B and A is negatively regulated by B. http://purl.obolibrary.org/obo/SEPIO_0000387 created_by http://purl.obolibrary.org/obo/SEPIO_0000150 has_contributor A relation between a particular information resource / digital artifact and an agent who made a primary contribution to its original creation. http://purl.obolibrary.org/obo/SEPIO_0000388 has_subject http://purl.obolibrary.org/obo/IAO_0000136 is_about A relation that holds between a statement or proposition which can be captured in part or in whole as a directional relationship between two entities, and the entity that representing the subject of this relationship. http://purl.obolibrary.org/obo/SEPIO_0000390 has_object http://purl.obolibrary.org/obo/IAO_0000136 is_about A relation that holds between a statement or proposition which can be captured in part or in whole as a directional relationship between two entities, and the entity that representing the object or value of this relationship. http://purl.obolibrary.org/obo/SEPIO_0000439 has_disputing_evidence_from_source http://purl.obolibrary.org/obo/SEPIO_0000145 has_evidence_from_source A relation used to link an assertion or proposition to a source where disputing evidence for it was found (i.e. a document, document part, database, etc) http://purl.obolibrary.org/obo/RO_0009501 realized in response to http://purl.obolibrary.org/obo/RO_0002410 causally related to r 'realized in response to' s iff, r is a realizable (e.g. a plant trait such as responsivity to drought), s is an environmental stimulus (a process), and s directly causes the realization of r. http://purl.obolibrary.org/obo/SEPIO_0000440 has_supporting_evidence http://purl.obolibrary.org/obo/SEPIO_0000189 has_evidence A relation that directly connects an assertion and a piece of information that contributes to an evidence line interpreted to support the truth of the assertion. http://purl.obolibrary.org/obo/SEPIO_0000441 has_disputing_evidence http://purl.obolibrary.org/obo/SEPIO_0000189 has_evidence A relation that directly connects an assertion and a piece of information that contributes to an evidence line interpreted to dispute the truth of the assertion. http://purl.obolibrary.org/obo/RO_0002428 involved in regulation of http://purl.obolibrary.org/obo/RO_0002431 involved in or involved in regulation of c involved in regulation of p if c is involved in some p' and p' regulates some p http://purl.obolibrary.org/obo/RO_0002429 involved in positive regulation of http://purl.obolibrary.org/obo/RO_0002428 involved in regulation of c involved in regulation of p if c is involved in some p' and p' positively regulates some p http://purl.obolibrary.org/obo/RO_0002430 involved in negative regulation of http://purl.obolibrary.org/obo/RO_0002428 involved in regulation of c involved in regulation of p if c is involved in some p' and p' negatively regulates some p http://purl.obolibrary.org/obo/RO_0002578 directly regulates http://purl.obolibrary.org/obo/RO_0002211 regulates p directly regulates q iff p is immediately causally upstream of q and p regulates q. http://purl.obolibrary.org/obo/RO_0002629 directly positively regulates http://purl.obolibrary.org/obo/RO_0002578 directly regulates p directly positively regulates q iff p is immediately causally upstream of q, and p positively regulates q. http://purl.obolibrary.org/obo/RO_0002630 directly negatively regulates http://purl.obolibrary.org/obo/RO_0002578 directly regulates p directly negatively regulates q iff p is immediately causally upstream of q, and p negatively regulates q. http://purl.obolibrary.org/obo/RO_0002087 immediately preceded by http://purl.obolibrary.org/obo/BFO_0000062 preceded by starts_at_end_of http://purl.obolibrary.org/obo/RO_0002090 immediately precedes http://purl.obolibrary.org/obo/BFO_0000063 precedes meets http://purl.org/ontology/bibo/doi digital object identifier (doi) http://purl.org/dc/terms/identifier identifier doi http://purl.obolibrary.org/obo/SEPIO_0000098 is_equilavent_to http://purl.obolibrary.org/obo/SEPIO_0000116 aligns_with has_equivalent_proposition http://purl.obolibrary.org/obo/SEPIO_0000099 is_consistent_with http://purl.obolibrary.org/obo/SEPIO_0000116 aligns_with has_consistent_proposition http://purl.obolibrary.org/obo/SEPIO_0000100 strongly_contradicts http://purl.obolibrary.org/obo/SEPIO_0000115 conflicts_with has_contradicting_proposition http://purl.obolibrary.org/obo/SEPIO_0000101 contradicts http://purl.obolibrary.org/obo/SEPIO_0000115 conflicts_with has_inconsistent_proposition http://purl.obolibrary.org/obo/SEPIO_0000113 has_compatability http://purl.obolibrary.org/obo/SEPIO_0000406 ExploratoryObjectProperty propositional relationships http://purl.obolibrary.org/obo/RO_0002447 phosphorylates http://purl.obolibrary.org/obo/RO_0002436 molecularly interacts with An interaction relation between x and y in which x catalyzes a reaction in which a phosphate group is added to y. http://purl.org/oban/association_has_predicate association has predicate http://purl.obolibrary.org/obo/SEPIO_0000389 has_predicate http://purl.obolibrary.org/obo/OBI_0000295 is specified input of http://purl.obolibrary.org/obo/RO_0000056 participates in http://purl.obolibrary.org/obo/OBI_0000312 is specified output of http://purl.obolibrary.org/obo/RO_0000056 participates in http://purl.obolibrary.org/obo/OBI_0000293 has specified input http://purl.obolibrary.org/obo/RO_0000057 has participant http://purl.obolibrary.org/obo/OBI_0000299 has specified output http://purl.obolibrary.org/obo/RO_0000057 has participant http://purl.obolibrary.org/obo/SEPIO_0000017 has_agent http://purl.obolibrary.org/obo/RO_0000057 has participant http://purl.obolibrary.org/obo/RO_0002405 immediately causally downstream of http://purl.obolibrary.org/obo/RO_0002404 causally downstream of http://purl.obolibrary.org/obo/RO_0002017 has component activity http://purl.obolibrary.org/obo/RO_0002018 has component process http://purl.obolibrary.org/obo/RO_0002559 causally influenced by http://purl.obolibrary.org/obo/RO_0002506 causal relation between entities http://purl.obolibrary.org/obo/RO_0002563 interaction relation helper property http://purl.obolibrary.org/obo/RO_0002464 helper property (not for use in curation) http://purl.obolibrary.org/obo/RO_0002564 molecular interaction relation helper property http://purl.obolibrary.org/obo/RO_0002563 interaction relation helper property http://purl.obolibrary.org/obo/RO_0002481 is kinase activity http://purl.obolibrary.org/obo/RO_0002564 molecular interaction relation helper property http://purl.org/pav/derivedFrom Derived from http://purl.org/dc/terms/source source http://purl.org/pav/retrievedFrom Retrieved from http://purl.org/dc/terms/source source http://purl.obolibrary.org/obo/SEPIO_0000164 date_updated http://purl.org/dc/terms/date date http://purl.obolibrary.org/obo/RO_0002086 ends after http://purl.obolibrary.org/obo/RO_0002222 temporally related to http://purl.obolibrary.org/obo/SEPIO_0000384 date_created_after http://purl.obolibrary.org/obo/SEPIO_0000434 ExploratoryDataProperty http://purl.obolibrary.org/obo/SEPIO_0000105 date_created_before http://purl.obolibrary.org/obo/SEPIO_0000434 ExploratoryDataProperty http://purl.obolibrary.org/obo/RO_0004033 acts upstream of or within, negative effect http://purl.obolibrary.org/obo/RO_0002264 acts upstream of or within http://purl.obolibrary.org/obo/RO_0004032 acts upstream of or within, positive effect http://purl.obolibrary.org/obo/RO_0002264 acts upstream of or within http://purl.obolibrary.org/obo/SEPIO_0000115 conflicts_with http://purl.obolibrary.org/obo/SEPIO_0000113 has_compatability http://purl.obolibrary.org/obo/SEPIO_0000116 aligns_with http://purl.obolibrary.org/obo/SEPIO_0000113 has_compatability http://purl.obolibrary.org/obo/SEPIO_0000126 is_inconsistent_with http://purl.obolibrary.org/obo/SEPIO_0000113 has_compatability http://purl.obolibrary.org/obo/SEPIO_0000063 start_date http://purl.obolibrary.org/obo/SEPIO_0000160 activity_date http://purl.obolibrary.org/obo/SEPIO_0000161 end_date http://purl.obolibrary.org/obo/SEPIO_0000160 activity_date http://purl.obolibrary.org/obo/SEPIO_0000419 probabilistic quantifier http://purl.obolibrary.org/obo/SEPIO_0000168 has_confidence_score http://purl.obolibrary.org/obo/RO_0002022 directly regulated by http://purl.obolibrary.org/obo/RO_0002334 regulated by http://purl.obolibrary.org/obo/RO_0002506 causal relation between entities http://purl.obolibrary.org/obo/RO_0002410 causally related to http://purl.obolibrary.org/obo/RO_0004046 causally upstream of or within, negative effect http://purl.obolibrary.org/obo/RO_0002418 causally upstream of or within http://purl.obolibrary.org/obo/RO_0004047 causally upstream of or within, positive effect http://purl.obolibrary.org/obo/RO_0002418 causally upstream of or within http://purl.org/oban/association_has_subject association has subject http://purl.obolibrary.org/obo/SEPIO_0000388 has_subject http://purl.org/oban/association_has_object association has object http://purl.obolibrary.org/obo/SEPIO_0000390 has_object http://purl.obolibrary.org/obo/RO_0000053 has characteristic is bearer of Inverse of characteristic_of 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/SEPIO_0000006 has_evidence_line has_evidence A relationship between an assertion or proposition and an evidence line used in evaluating its validity. http://purl.obolibrary.org/obo/SEPIO_0000015 proposition_asserted_in is_asserted_in A relation holding between a proposition and an assertion in which it is expressed. http://purl.obolibrary.org/obo/SEPIO_0000146 has_evidence_level has_total_evidence_strength A relation used to link an assertion or proposition directly to some indicator of the strength of the total evidence that asserting agent beleives to support it. http://purl.obolibrary.org/obo/SEPIO_0000159 qualified_contribution has_contribution A relation holding between an artifact and a contribution made by a particular agent to its creation, modification, assessment, or destruction. http://purl.obolibrary.org/obo/SEPIO_0000167 has_confidence_level trust_rating A relation between an information entity and an indicator of degree of confidence that the information it represents is true. http://purl.obolibrary.org/obo/SEPIO_0000169 performed_for performed_on_behalf_of A relation between an agent and an other agent, typically an organization, on whose behalf a Contribution is made. http://purl.obolibrary.org/obo/SEPIO_0000189 has_evidence has_evidence_line_with_item A relation that directly connects an assertion and an evidence item that contributes to one or more of its evidence lines. This evidence provided by this item may support or dispute the target assertion. http://purl.obolibrary.org/obo/SEPIO_0000197 asserted_conclusion asserted_outcome A relationship that holds between an assertion and a term that summarizes its asserted conclusion. http://purl.obolibrary.org/obo/SEPIO_0000108 is_expressed_in is_reported_in Relationship between a statement or proposition and a document in which it is expressed (e.g. a publication, report, or database record). http://purl.obolibrary.org/obo/SEPIO_0000398 has_evidence_of_type A shortcut relation that links an assertion directly to a term representing the type of evidence that supports it. http://purl.obolibrary.org/obo/SEPIO_0000415 information_quality A relation describing the quality of a piece of information, wich may or may not be used as evidence by an agent making an assertion. http://purl.obolibrary.org/obo/SEPIO_0000346 statement qualifier A relation used to qualify the meaning of a statement. http://purl.obolibrary.org/obo/RO_0002324 developmentally related to A relationship that holds between entities participating in some developmental process (GO:0032502) http://purl.org/dc/elements/1.1/description description An account of a resource. http://purl.obolibrary.org/obo/IAO_0000136 is_about Is_about is a (currently) primitive relation that relates an information artifact to an entity. http://purl.obolibrary.org/obo/RO_0017001 device utilizes material X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y. http://purl.obolibrary.org/obo/RO_0002434 interacts with A relationship that holds between two entities in which the processes executed by the two entities are causally connected. http://purl.org/dc/terms/source source A related resource from which the described resource is derived. http://purl.org/dc/terms/date date A point or period of time associated with an event in the lifecycle of an information entity or resource. http://xmlns.com/foaf/0.1/name name A name for some thing. http://purl.obolibrary.org/obo/RO_0002323 mereotopologically related to A mereological relationship or a topological relationship http://purl.obolibrary.org/obo/RO_0002328 functionally related to A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities. http://purl.obolibrary.org/obo/SEPIO_0000041 was_specified_by A relation holding between a planned process, or the artifact it generates, and a plan specification that specifies all or part of the process (e.g. a protocol, guideline, rule set) http://purl.obolibrary.org/obo/SEPIO_0000429 evidence_line_strength_score A numerical value that quantifies the strength of evidence provided by a line of evidence. This is a counterpart to the evidence_line_strength object property - for use when the strength of evidence is captured using a quantitiative score/measure. http://purl.obolibrary.org/obo/ERO_0000480 has_url Web address of the resource http://purl.org/pav/curatedBy Curated by Specifies an agent specialist responsible for shaping the expression in an appropriate format. Often the primary agent responsible for ensuring the quality of the representation. The curator may be different from the author (pav:authoredBy) and creator of the digital resource (pav:createdBy). The curator may in some cases be a software agent, for instance text mining software which adds hyperlinks for recognized genome names. The date of curating can be expressed using pav:curatedOn - note however in the case of multiple curators that there is no relationship in PAV identifying which agent contributed when or what. If capturing such lineage is desired, it should be additionally expressed using PROV relationships like prov:qualifiedAttribution or prov:wasGeneratedBy http://purl.obolibrary.org/obo/SEPIO_0000030 asserts_proposition A relation holding between an assertion and the proposition that it puts forth as true. http://purl.obolibrary.org/obo/SEPIO_0000109 expresses Relationship between a document (e.g. a publication, report, database record) and an assertion or proposition that is stated in its content. http://purl.obolibrary.org/obo/SEPIO_0000132 evidence_line_strength A relation describing the degree of support provided by an evidence line for a target assertion or proposition. http://purl.obolibrary.org/obo/SEPIO_0000145 has_evidence_from_source A relation used to link an assertion or proposition to a source where evidence for it was found (i.e. a document, document part, database, etc) http://purl.obolibrary.org/obo/SEPIO_0000150 has_contributor A relation between an information content entity and an agent who made a contribution to its information content, or to its subsequent modification or assessment. http://purl.obolibrary.org/obo/SEPIO_0000168 has_confidence_score A quantitative value that can be interpreted as an indicator of the degree of confidence that a piece of information is true, and accurately reflects the aspect of reality it is about. http://purl.obolibrary.org/obo/SEPIO_0000178 is_described_by A relation between one entity and an informtion content entity that provides a description of it. http://purl.obolibrary.org/obo/SEPIO_0000183 evidence_direction A relation indicating whether an evidence line supports or disputes a target proposition (or represents inconclusive evidence that is not sufficient for either). http://purl.obolibrary.org/obo/SEPIO_0000231 statement quantifier A relation used to link a statement to some quantitative measure about the statement itself (e.g. a confidence score) http://purl.obolibrary.org/obo/RO_0002410 causally related to relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause. http://purl.obolibrary.org/obo/SEPIO_0000407 specified_creation_of A relation holding between a plan specification and a planned process it specifies, or the artifact the process generates. http://purl.obolibrary.org/obo/SEPIO_0000437 provided_by A relationship between an information resource found in some information system, and the agent (person, organization, computational agent) who is responsible for sharing/providing it to that information system. http://purl.obolibrary.org/obo/SEPIO_0000442 reference Links an entity to a document that describes it. http://purl.obolibrary.org/obo/SEPIO_0000433 activity_location process_location http://purl.obolibrary.org/obo/BFO_0000054 realized in realized_in http://purl.obolibrary.org/obo/SEPIO_0000427 is_evidence_line_for evidence_for http://purl.obolibrary.org/obo/SEPIO_0000021 obsolete_date_created created_on http://purl.obolibrary.org/obo/SEPIO_0000152 obsolete_evidence_assessed_by evidence_strength_assessed_by http://purl.obolibrary.org/obo/SEPIO_0000160 activity_date process_date http://purl.obolibrary.org/obo/SEPIO_0000376 evidence_item_for http://purl.obolibrary.org/obo/BFO_0000055 realizes http://purl.obolibrary.org/obo/RO_0000058 is concretized as http://purl.obolibrary.org/obo/STATO_0000129 has_value http://purl.obolibrary.org/obo/RO_0002464 helper property (not for use in curation) http://purl.obolibrary.org/obo/STATO_0000102 executes http://purl.org/dc/terms/title title http://purl.obolibrary.org/obo/RO_0002222 temporally related to http://purl.obolibrary.org/obo/RO_0002502 depends on http://purl.obolibrary.org/obo/COB_0000078 concretizes http://purl.obolibrary.org/obo/COB_0000081 intended to realize http://purl.obolibrary.org/obo/COB_0000087 realizes http://purl.obolibrary.org/obo/SEPIO_0000434 ExploratoryDataProperty http://purl.obolibrary.org/obo/SEPIO_0000435 ObsoleteDataProperty http://purl.org/dc/terms/identifier identifier http://purl.org/pav/authoredBy Authored by http://purl.org/pav/createdBy Created by http://purl.org/pav/sourceAccessedAt Source accessed at http://purl.org/pav/version version http://purl.obolibrary.org/obo/SEPIO_0000026 assertion_has_subject http://purl.obolibrary.org/obo/SEPIO_0000027 assertion_has_object http://purl.obolibrary.org/obo/SEPIO_0000028 assertion_has_predicate http://purl.obolibrary.org/obo/SEPIO_0000046 has_role http://purl.obolibrary.org/obo/SEPIO_0000123 has_textual_part http://purl.obolibrary.org/obo/SEPIO_0000162 obsolete_date_curated http://purl.obolibrary.org/obo/SEPIO_0000188 contributes_to http://purl.obolibrary.org/obo/SEPIO_0000232 obsolete_has_quantifier http://purl.obolibrary.org/obo/COB_0000016 executed by http://purl.obolibrary.org/obo/SEPIO_0000406 ExploratoryObjectProperty http://purl.obolibrary.org/obo/RO_0002616 related via evidence or inference to