2010-05-01 United Nations cartographic maps United Nations cartographic maps http://www.un.org/Depts/Cartographic/map/profile/world00.pdf http://www.un.org/Depts/Cartographic/map/profile/world00.pdf 2010-05-01 United Nations cartographic maps United Nations cartographic maps http://www.un.org/Depts/Cartographic/map/profile/world00.pdf http://www.un.org/Depts/Cartographic/map/profile/world00.pdf 2010-04-15 United Nations Statistics Division United Nations Statistics Division http://unstats.un.org/unsd/methods/m49/m49chang.htm http://unstats.un.org/unsd/methods/m49/m49chang.htm http://unstats.un.org/unsd/methods/m49/m49chgef.htm 2010-04-15 United Nations Statistics Division United Nations Statistics Division http://unstats.un.org/unsd/methods/m49/m49chang.htm http://unstats.un.org/unsd/methods/m49/m49chang.htm http://unstats.un.org/unsd/methods/m49/m49chgef.htm has_contact_info contact_info_for context_for has_context url_link_for has_url_link has contact agent part_of has_part provides_access_to An access service that provides access to a flow cytometer. Instruments, reagents, organisms, or software for which the service provides access. PERSON: Melissa Haendel PERSON: Melissa Haendel change the domain tye to access service uses Here there are things to be fixed (for instance a service can use a technique...) Microsoft powerpoint is commonly used in research laboratories to prepare presentations. PERSON: Melissa Haendel PERSON: Melissa Haendel Software or protocol used by the laboratory. uses has_expertise Brian Druker has expertise in cancer research. PERSON: Melissa Haendel PERSON: Melissa Haendel Technique in which the person is proficient. has expertise has_manufacturer Organization or person that created the resource. PERSON: Melissa Haendel PERSON: Melissa Haendel Santa Cruz Biotechnology is the manufacturer of many antibodies. has manufacturer provides_service A core lab providing cell sorting to individual labs. PERSON: Melissa Haendel PERSON: Melissa Haendel Service offered by the organization. provides services specifies_the_use_of A protocol can specify the use of a flow cytometer. Instruments, techniques, reagents, organisms, or software that are referenced in a protocol. PERSON: Melissa Haendel PERSON: Melissa Haendel specifies the use of used_by A laboratory uses Microsoft Word. Laboratory that uses the protocol or software. PERSON: Melissa Haendel PERSON: Melissa Haendel used by has_input_type Imaging processing software that requires .jpg format files for analysis. PERSON: Carlo Torniai PERSON: Melissa Haendel Software data input format. has input format has_output_type Microsoft Excel arranges and saves data in .xlsx format. PERSON: Carlo Torniai PERSON: Melissa Haendel Software data output type. has output format achieves_objective ImageJ software measures characteristics of digital images. PERSON: Carlo Torniai PERSON: Melissa Haendel Transformation objective of the software. achieves objective service_provided_by A core laboratory provides a service. Organization or laboratory performing the service. PERSON: Melissa Haendel PERSON: Melissa Haendel service provided by performs A cancer researcher performs apoptosis assays. PERSON: Melissa Haendel PERSON: Melissa Haendel Technique carried out by the person or laboratory. is_performed_by Confocal microscopy is performed by a confocal core laboratory. PERSON: Melissa Haendel PERSON: Melissa Haendel Person or laboratory that performs the service or technique. is performed by has_documentation An antibody has documentation describing attributes of the antibody. Document that contains relevant resource information. PERSON: Melissa Haendel PERSON: Melissa Haendel has documentation realizes_protocol A sequencing protocol used for next generation sequencing. PERSON: Melissa Haendel PERSON: Melissa Haendel Protocol used to perform the service. placeholder: need to be modeled for the proper kind of service (production services) realizes protocol uses_software PERSON: Melissa Haendel PERSON: Melissa Haendel Placeholder needs to be redesign Sequence analysis software. Software used to perform the service. true uses software related_technique Flow cytometry is a related technique for a flow cytometer instrument. Method in which the resource can be used. PERSON: Melissa Haendel PERSON: Melissa Haendel related technique used_to_study A study of hibernation in bears. Biological process studied in the organism. PERSON: Melissa Haendel PERSON: Melissa Haendel used to study has_residency_requirement A research opportunity requires applicants to be US citizens. PERSON: Melissa Haendel PERSON: Melissa Haendel US residency status of applicants that may apply for the student research opportunity. has residency requirement related_research_project A research project studying breast cancer. PERSON: Melissa Haendel PERSON: Melissa Haendel Research project during which the biological specimen was collected. related research project related_biological_specimen A breast cancer specimen. Biological specimen collected as part of the research project. PERSON: Melissa Haendel PERSON: Melissa Haendel related biological specimen has_preparation_technique PERSON: Melissa Haendel PERSON: Melissa Haendel Paraffin embedding of tissue. Technique used to prepare the biological specimen. has preparation technique has_phase PERSON: Melissa Haendel PERSON: Melissa Haendel Phase 1 clinical trial. Phase of a clinical trial to evaluate risk and to clinically evaluate the efficacy of drugs or biologicals. has phase performs_human_study Human study performed by the organization. PERSON: Melissa Haendel PERSON: Melissa Haendel The Jackson Heart Institute performs human studies on heart disease. performs human study human_study_performed_by Jackson State University performs human studies on heart disease. Organization that performs the human study. PERSON: Melissa Haendel PERSON: Melissa Haendel human study performed by has_format has_software_license Is a legal instrument (usually by way of contract law) governing the usage or redistribution of software. PERSON: Scott Hoffmann http://en.wikipedia.org/wiki/Software_license objective_achieved_by_operation Links an objective to a software operation whise execution achieves the objective. Is different from OBI:objective_achieved_by which links an objective to the process that achieves it. PERSON:Matthew Brush PERSON:Matthew Brush a relation between a software objective (data transformation objective) and an operation whose execution in a software tool achieves the objective software relation expanding to something like: objective_achieved_by some ('software/algorithm execution' and (specified_by some 'data processing operation')) has measurement unit label is about 7/6/2009 Alan Ruttenberg. Following discussion with Jonathan Rees, and introduction of "mentions" relation. Weaken the is_about relationship to be primitive. We will try to build it back up by elaborating the various subproperties that are more precisely defined. Some currently missing phenomena that should be considered "about" are predications - "The only person who knows the answer is sitting beside me" , Allegory, Satire, and other literary forms that can be topical without explicitly mentioning the topic. Smith, Ceusters, Ruttenberg, 2000 years of philosophy This document is about information artifacts and their representations is_about is a (currently) primitive relation that relates an information artifact to an entity. person:Alan Ruttenberg mentions is quality measurement of 8/6/2009 Alan Ruttenberg: The strategy is to be rather specific with this relationship. There are other kinds of measurements that are not of qualities, such as those that measure time. We will add these as separate properties for the moment and see about generalizing later Alan Ruttenberg From the second IAO workshop [Alan Ruttenberg 8/6/2009: not completely current, though bringing in comparison is probably important] This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it "measuring" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail. Werner suggests a solution based on "Magnitudes" a proposal for which we are awaiting details. -- From the second IAO workshop, various comments, [commented on by Alan Ruttenberg 8/6/2009] unit of measure is a quality, e.g. the length of a ruler. [We decided to hedge on what units of measure are, instead talking about measurement unit labels, which are the information content entities that are about whatever measurement units are. For IAO we need that information entity in any case. See the term measurement unit label] [Some struggling with the various subflavors of is_about. We subsequently removed the relation represents, and describes until and only when we have a better theory] a represents b means either a denotes b or a describes describe: a describes b means a is about b and a allows an inference of at least one quality of b We have had a long discussion about denotes versus describes. From the second IAO workshop: An attempt at tieing the quality to the measurement datum more carefully. a is a magnitude means a is a determinate quality particular inhering in some bearer b existing at a time t that can be represented/denoted by an information content entity e that has parts denoting a unit of measure, a number, and b. The unit of measure is an instance of the determinable quality. From the second meeting on IAO: An attempt at defining assay using Barry's "reliability" wording assay: process and has_input some material entity and has_output some information content entity and which is such that instances of this process type reliably generate outputs that describes the input. This one is the one we are struggling with at the moment. The issue is what a measurement measures. On the one hand saying that it measures the quality would include it "measuring" the bearer = referring to the bearer in the measurement. However this makes comparisons of two different things not possible. On the other hand not having it inhere in the bearer, on the face of it, breaks the audit trail. Werner suggests a solution based on "Magnitudes" a proposal for which we are awaiting details. 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 is quality measured as 2009/10/19 Alan Ruttenberg. Named 'junk' relation useful in restrictions, but not a real instance relationship Person:Alan Ruttenberg inverse of the relation of is quality measurement of has_specified_input 8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works. PERSON: Bjoern Peters PERSON: Larry Hunter PERSON: Melanie Coutot has_specified_input 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. PERSON: Alan Ruttenberg see is_input_of example_of_usage has_specified_output PERSON: Bjoern Peters PERSON: Larry Hunter PERSON: Melanie Courtot has_specified_output 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. PERSON: Alan Ruttenberg is_manufactured_by Alan Ruttenberg Liju Fan c is_manufactured_by o means that there was a process p in which c was built in which a person, or set of people or machines did the work(bore the "Manufacturer Role", and those people/and or machines were members or of directed by the organization to do this. has_make has_manufacturer http://www.affymetrix.com/products/arrays/specific/hgu133.affx is_manufactered_by http://www.affymetrix.com/ (if we decide to use these URIs for the actual entities) is_manufactured_by is_specified_output_of PERSON:Bjoern Peters is_specified_output_of 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. Alan Ruttenberg achieves_planned_objective A cell sorting process achieves the objective specification 'material separation objective' BP, AR, PPPB branch PPPB branch derived 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. modified according to email thread from 1/23/09 in accordince with DT and PPPB branch has grain PAPER: Granularity, scale and collectivity: When size does and does not matter, Alan Rector, Jeremy Rogers, Thomas Bittner, Journal of Biomedical Informatics 39 (2006) 333-349 has grain 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. Discussion in Karslruhe with, among others, Alan Rector, Stefan Schulz, Marijke Keet, Melanie Courtot, and Alan Ruttenberg. Definition take from the definition of granular parthood in the cited paper. Needs work to put into standard form PERSON: Alan Ruttenberg objective_achieved_by This relation obtains between a a objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process. definition needs clean up to indicate directionality inheres in This clarifies that only specifically dependent continuants inhere in (specifically) one independent continuant over all time. For GDCs, there in implicitly inherence to all the independent continuants in which the concretizations inhere. Should add a 'cardinality 1' restriction to the definition of specifically dependent continuant. This relation belongs in BFO/RO, and will be in BFO 2 bearer_of participates in has participant derives from (ro) location of contained in contains located in adjacent to has input has output member of has_member output_of produces Melissa Haendel a produces b if some process that occurs_in a has_output b, where a and b are material entities. Examples: hybridoma cell line produces monoclonal antibody reagent; chondroblast produces avascular GAG-rich matrix. produced_by is agent in role_of A relation between a role R and an entity E. R role_of E iff: R inheres_in E and R is a role GROUP:OBI:<http://obi.sourceforge.net> PERSON: Chris Mungall role_of affirmedby The public description was taken from here: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html http://purl.org/ontology/bibo/ A legal decision that affirms a ruling. annotates The public description source is: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html. http://purl.org/ontology/bibo/ stable Critical or explanatory note for a Document. cited by cites court Public description take from: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html. Bibo considers this property "unstable". http://purl.org/ontology/bibo/ unstable A court associated with a legal document; for example, that which issues a decision. related degree The source of the public description and this info is found here: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html. Bibo considers this term "unstable". The bibo editorial note is: "We are not defining, using an enumeration, the range of the bibo:degree to the defined list of bibo:ThesisDegree. We won't do it because we want people to be able to define new degress if needed by some special usecases. Creating such an enumeration would restrict this to happen." http://purl.org/ontology/bibo/ The thesis degree. We are not defining, using an enumeration, the range of the bibo:degree to the defined list of bibo:ThesisDegree. We won't do it because we want people to be able to define new degress if needed by some special usecases. Creating such an enumeration would restrict this to happen. unstable director Definition take from this site: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html . http://purl.org/ontology/bibo/ A Film director. stable interviewee http://purl.org/ontology/bibo/ stable An agent that is interviewed by another agent. interviewer http://purl.org/ontology/bibo/ stable An agent that interview another agent. performer http://purl.org/ontology/bibo/ stable related documents Public Description from source: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html . Bibo considers the bibo:presents and the bibo:presentedAt unstable terms. It also indicates that bibo:presents is a sub-property of event:product. http://purl.org/ontology/bibo/ Relates an event to associated documents; for example, conference to a paper. unstable recipient http://purl.org/ontology/bibo/ stable An agent that receives a communication document. reproduced in reversedby The first sentence of the public description was taken from here: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html http://purl.org/ontology/bibo/ A legal decision that reverses a ruling. review of The bibo:reviewOf public description was found here: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html . As of 26 May 2010, bibo:reviewOf is used with the class Review, but core:reviewIn doesn't seem to be being used. status paraphrased editorial note from the bibo ontology: We are not defining, using an enumeration, the range of the bibo:status to be a defined list of bibo:DocumentStatus. This is because we want people to be able to define new statuses if needed; and creating such an enumeration would prevent this. subsequentlegaldecision Public description is from comments of this object property in bibo ontology located here: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html http://purl.org/ontology/bibo/ A legal decision on appeal that takes action on a case (affirming it, reversing it, etc.). transcript of The bibo:transcriptOf public description was found here: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html . Bibo considers this term unstable. http://purl.org/ontology/bibo/ Relates a document to some transcribed original. unstable translation of Examples shows a book has French language version. Public description source: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html . http://purl.org/ontology/bibo/ Relates a translated document to the original document. stable translator has_global_citation_frequency A property linking a publication entity to an instance of c40:GlobalCitationCount that specifies how many times a work has been cited by others, according to a particular information source on a particular date. has global count source A property linking an instance of c40:GlobalCitationCount to the bibliographic information source providing the global citation count information for a particular publication on a particular date. assigned by Relates a Relationship (as a predicate or n-ary relation over one or more Thing) to an Agent that defined or instantiated the predicate instance. assigns date filed date issued has date/time interval date/time precision date/time value end date value expiration date features This is done through a restriction on the foaf:Person class. geographic focus geographic focus of geographic_location_of subcontracted through associated concept has geographic location Currently being used by a restriction on organization. has prerequisite published in successor organization has translation Examples shows a book has French language version. Public description source: http://bibotools.googlecode.com/svn/bibo-ontology/trunk/doc/index.html . offered by offers prerequisite for provides funding through For example, National Science Foundation providesFundingThrough Graduate Research Fellowship Program; National Institutes of Health providesFundingThrough National Center for Research Resources. publication venue for publisher (vivo op) Public Definition source (http://www.answers.com/topic/publisher). publisher of Public Definition source (http://www.answers.com/topic/publisher). related by Relates a Thing to a Relationship as a Thing that is somehow related to other Thing in the same Relationship instance. A Relationship instnace is a predicate over Thing and is created by an Agent. relates Relates a Relationship instance to the one or more Thing of the Relationship. There is a separate property (assigned by) to relate to the Agent that defines the Relationship. reviewed_in start date value subcontracts grant translator of access provided by documentation for protocol realized by implements is_encoded_in has_agent deprecatedproperty broader term Public description modified from the information on this page: http://www.w3.org/TR/2005/WD-swbp-skos-core-guide-20050510/#sechierarchy . narrower term Public description modified from the information on this page: http://www.w3.org/TR/2005/WD-swbp-skos-core-guide-20050510/#sechierarchy . related (skos) has address has calendar link has calendar request has calender busy has category has email has formatted name has geo has messaging has key has language (vcard op) has logo member To include a member in the group this vCard represents has name has nickname has note has organization name has organisational unit name has photo has related (vcard op) has role has sound has telephone has time zone has title has url orcid id This is now an object property where the object value is a resource of the form <http://orcid.org/NNNN-NNNN-NNNN-NNNN>. This is to support connecting VIVO and ORCID in the linked data web. Note: a person can have multiple ORCID iDs. contributes to contributor research areas research area of