Definition
type: AnnotationProperty
preferred label: definition
type: DatatypeProperty
range: string

replacedBy
type: AnnotationProperty
domain: DeprecatedClass
type: ObjectProperty

AlgorithmPurpose
type: ObjectProperty
comment: Scientific purpose of algorithm
domain: Algorithm

DocumentGoal
type: ObjectProperty
comment: What are the goals of the document
domain: Document

InteractionType
type: ObjectProperty
comment: What type of interaction is this?

MeasurementType
type: ObjectProperty
comment: what kind of information is being capture in this measurement?
domain: Experimental Measurement

OutputForm
type: ObjectProperty
comment: What form of output is produced by this thing
domain: Algorithm

Data input
type: ObjectProperty
Definition: Data input API for resource
preferred label: data input
range: Data Resource
domain: Resource Description

Data output
type: ObjectProperty
Definition: Data output API for resource
preferred label: data output
range: Data Resource
domain: Resource Description

related activities
type: ObjectProperty
Definition: Related activity represented by a subclass of the activity:Activity class in the BRO -- multiple values allowed
domain: Resource Description
range: Class
  union of: Activity
  union of: Deprecated Activity

related areas of research
type: ObjectProperty
Definition: Related area of research represented by a subclass of the area:Area_of_Research class in the BRO -- multiple values allowed
range: Area of Research
domain: Resource Description

Cross reference to another Resource Description, which describes a resource that is related in some way to this resource.
type: ObjectProperty
range: Resource Description
domain: Resource Description

Resource type
type: ObjectProperty
Definition: The class in the BRO that describes the type of the resource -- multiple values allowed
preferred label: resource type
range: Resource
domain: Resource Description

version information
type: ObjectProperty
Definition: The version information for the resource defined by a desc:Version_Information instance (containing information about version number, development stage and release date)
domain: Resource Description
range: Version Information

Identifier
type: DatatypeProperty
comment: Any kind of identifier

Implementation_Language
type: DatatypeProperty
preferred label: Implementation Language

Originator
type: DatatypeProperty
comment: Originator of a class
domain: Algorithm

Other_Information
type: DatatypeProperty
preferred label: Other Information
domain: Algorithm

PeerReviewStatus
type: DatatypeProperty
comment: is this a peer-reviewed scientific publication?
domain: Publication

ProteinType
type: DatatypeProperty
comment: broad classification of protein type based on structure or function

Target_User_Type
type: DatatypeProperty
preferred label: Target User Type

TranscriptType
type: DatatypeProperty
comment: Type of biological transcript

URL
type: DatatypeProperty
Definition: The URL to access the resource
domain: Resource Description
range: string

biositemap author
type: DatatypeProperty
Definition: The person who edits or is responsible for the content of this biositemap file or of a particular resource description entry.
domain: Resource Description
range: string

byline
type: DatatypeProperty
deprecated: true
range: string

Center or Institute
type: DatatypeProperty
Definition: Name and/or acronym of the research center or institute (if appropriate) that produced, shares, or uses the resource (usually a sub-unit of Organization)
preferred label: center
domain: Resource Description
range: string

Contact Person(s)
type: DatatypeProperty
Definition: The contact person for the resource
preferred label: contact person
domain: Resource Description
range: string

contact person email
type: DatatypeProperty
Definition: Email address contact for the resource
domain: Resource Description

contact person phone
type: DatatypeProperty
Definition: Phone number contact for the resource
domain: Resource Description
range: string

Description
type: DatatypeProperty
Definition: The description of the resource
preferred label: description
domain: Resource Description
range: string

Development stage
type: DatatypeProperty
Definition: Development stage (e.g. pre-alpha, alpha, beta, pre-release, release)
preferred label: development stage
domain: Version Information
range: string

documentation URL
type: DatatypeProperty
deprecated: true
range: string

documentation available
type: DatatypeProperty
type: FunctionalProperty
Definition: Is there available documentation [yes | no]
domain: Resource Description
range: string

keywords
type: DatatypeProperty
Definition: The list of keywords
comment: choice of either many individual keyword elements or one element with comma-separated-values
domain: Resource Description
range: string

Implementation Language
type: DatatypeProperty
Definition: Software programming language in which resource was written or can be accessed
preferred label: language
domain: Resource Description
range: string

License model
type: DatatypeProperty
Definition: The license under which the resource is distributed
preferred label: license
domain: Resource Description
range: string

mailing list URL
type: DatatypeProperty
deprecated: true
range: string

Organization
type: DatatypeProperty
Definition: Name of the organization that produced, shares, or uses the resource (for example Stanford University, University of Pittsburgh, etc.)
preferred label: organization
domain: Resource Description
range: string

Platforms tested
type: DatatypeProperty
Definition: The software platforms on which the resource was tested (for software resources)
preferred label: platforms
domain: Resource Description
range: string

release date
type: DatatypeProperty
Definition: Date of release of version (can be specified as xsd:date or as an xsd:string)
domain: Version Information

Research Program
type: DatatypeProperty
Definition: Name of the research cluster as identified through a funding program or other generally-accepted organizational cluster (for example NCBC, CTSA, etc.)
preferred label: research program
domain: Resource Description
range: string

Name
type: DatatypeProperty
Definition: The name of the resource
preferred label: resource name
domain: Resource Description
range: string

resource sharable
type: DatatypeProperty
type: FunctionalProperty
Definition: Is this resource sharable [yes | no]
domain: Resource Description
range: string

technical support
type: DatatypeProperty
Definition: What technical support is available [available | limited | none]
domain: Resource Description
range: string

Version number
type: DatatypeProperty
Definition: The version number
preferred label: version
domain: Version Information
range: string

Activity
type: Class
Definition: Activity of interest that may be related to a BRO:Resource.
alternative label: activities

Biospecimen Management
type: Class
subclass of: Activity
Definition: Activity related to the creation, use, or maintenance of a biorepository (http://en.wikipedia.org/wiki/Biorepository)

Community Engagement
type: Class
subclass of: Activity
Definition: As defined in http://en.wikipedia.org/wiki/Community_engagement

Deprecated Activity
type: Class
Definition: Former subclasses of activity:Activity that have been deprecated and their usage is not recommended.
deprecated: true

Gene Therapy
type: Class
subclass of: Therapeutics
Definition: As defined in http://en.wikipedia.org/wiki/Gene_therapy

Health Services
type: Class
subclass of: Activity
Definition: As defined in http://en.wikipedia.org/wiki/Health_services_research

Heath Services
type: Class
subclass of: Deprecated Activity
Definition: As defined in http://en.wikipedia.org/wiki/Health_services_research
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Health Services
type: NamedIndividual

IRB
type: Class
subclass of: Activity
Definition: Tag as a resource for a specific Institutional Review Board (http://en.wikipedia.org/wiki/Institutional_Review_Board)
cui: 0123456789

Medical Device Development
type: Class
subclass of: Activity
Definition: As defined in http://en.wikipedia.org/wiki/Medical_device

Novel Therapeutics
type: Class
subclass of: Deprecated Activity
history note: Deprecated for BRO v2.7
Definition: Innovative therapeutics (http://en.wiktionary.org/wiki/therapeutics)
deprecated: true
replacedBy: Therapeutics
type: NamedIndividual

Regulatory Compliance
type: Class
subclass of: Activity
Definition: As defined in http://en.wikipedia.org/wiki/Regulatory_compliance

Research Funding
type: Class
subclass of: Activity
Definition: Activity related to learning about, securing, and managing money to support research

Research Lab Management
type: Class
subclass of: Activity
Definition: Management and communications within the laboratory setting (http://www.umuc.edu/programs/undergrad/certificates/lab_mgmt.shtml)

Resource Inventory
type: Class
subclass of: Activity
Definition: Activity related to gathering and inventory of resources, e.g., biositemaps

Small Molecule
type: Class
subclass of: Therapeutics
Definition: As defined in http://en.wikipedia.org/wiki/Small_molecule

Social Networking
type: Class
subclass of: Activity
Definition: As defined in http://en.wikipedia.org/wiki/Social_network

Software Development
type: Class
subclass of: Activity

Surgical Procedure
type: Class
subclass of: Therapeutics
Definition: Methods used in the medical specialty of surgery, as defined in http://en.wikipedia.org/wiki/Surgical_procedure

Therapeutics
type: Class
subclass of: Activity
Definition: Innovative therapeutics (http://en.wiktionary.org/wiki/therapeutics)

Training
type: Class
subclass of: Activity
Definition: As defined in http://en.wikipedia.org/wiki/Training

Aggregate Human Data
type: Class
subclass of: Clinical Care Data
Definition: A resource that provides data from clinical care that comprises combined data from multiple individual human subjects.

Algorithm
type: Class
subclass of: Software
Definition: Resource that provides access to software or application that perform numerical analysis or other canonical computational methods that act either on experimental or synthetic data.

Amplifier
type: Class
subclass of: Instrument
Definition: An instrument that increases the output of another instrument.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Analysis of Gel-Electrophoresis
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that can be used to provide quantitative data on the molecules being analyzed such as molecular weight, abundance or purity.

Anatomic Atlas
type: Class
subclass of: Deprecated Resource
Definition: A collection of tables, charts, or plates to illustrate anatomical structures.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Atlas
type: NamedIndividual

Animal Care Facility
type: Class
subclass of: Research Animals Facility
Definition: A facility or core devoted to the care of research animals.
editorial note: pending final vetting: Refine definition

Animal Compliance Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource which can include a committee or a board that reviews research protocols and conducts evaluations of the animal care facilities. The resource can be used to ensure the use of animals in research follows the required legal and ethical guidelines.

Animal Models Facility
type: Class
subclass of: Research Animals Facility
Definition: A facility or core devoted to developing animal research models (http://en.wikipedia.org/wiki/Animal_models)
editorial note: pending final vetting: Refine definition

Antibody Production
type: Class
subclass of: Material Service
Definition: A resource that provides access to the ability to generate antibodies that bind to a specific antigen.

Application Programming Interface
type: Class
subclass of: Integration
Definition: Resource that provides access to software, application, or toolkit that enables or can be used to develop application programming interfaces.

Approximate Graph Alignment
type: Class
subclass of: Graph Alignment
subclass of: Searching Sorting and Indexing
Definition: Resource that provides access to software, applications, or toolkits that allows insertions, deletions, or mismatches in nodes/edges.

Assessment Material Resource
type: Class
subclass of: Material Resource
Definition: A resource that provides access to scientific data assessment instruments, for example behavioral assessment tests.

Atlas
type: Class
subclass of: Semi-Structured Knowledge Resource
Definition: A resource that provides anatomical data represented by spatially indexed anatomical maps.

Atlas Generation
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that generate computational atlases of biological objects using imaging techniques.

Authentication
type: Class
subclass of: Identity Management
Definition: The process of confirming the correctness of the claimed identity.

Authorization
type: Class
subclass of: Identity Management
Definition: The process of specifying access rights to a resource.

Automated Natural Language Output
type: Class
subclass of: Deprecated Resource
Definition: Data file resulting from natural language processing.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Natural Language Processing
type: NamedIndividual

Averaging and Agglomeration
type: Class
subclass of: Signal Processing
Definition: Resource that provides access to software, applications, or toolkits that performs signal processing by repeated measures of the signal and then calculates the expected value of the data set.

Averaging and Aglomeration
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software, applications, or toolkits that performs signal processing by repeated measures of the signal and then calculates the expected value of the data set.
deprecated: true
replacedBy: Averaging and Agglomeration
type: NamedIndividual

Backup Archive Service
type: Class
subclass of: Computational Service
Definition: A resource that provides long-term storage for back-up copies of files.

Backup Archives and Disaster Recovery
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides long-term storage for backup copies of files or for files that are no longer in active use, and the ability to retrieve backed up content in the event of a disaster that impacts the system in question,
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Backup Archive Service
replacedBy: Disaster Recovery Service
type: NamedIndividual

Behavioral Analysis Service
type: Class
subclass of: Computational Service
Definition: A resource that provides data from whole behaving animals, which are either provided to the service provider or purchased by the service provider specifically for the experiment which the provider was contracted to perform. Viewing this as an input/output relationship the input would be an animal and the output would be data such as an excel sheet of times of escape from the Morris water maze.
editorial note: pending final vetting: review hierarchy location

Bibliographic Resource
type: Class
subclass of: Semi-Structured Knowledge Resource
Definition: A resource that contains information about or access to published sources.
type: NamedIndividual

Binary Executable
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to Software that contains data encoded in binary form and contains instructions for the computer to perform a given set of tasks.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Biobank Facility
type: Class
subclass of: Tissue Organ Facility
Definition: A facility or core that provides storage for any type of biospecimen.

Biochemical Supply Resource
type: Class
subclass of: Deprecated Resource
Definition: Biochemical (http://en.wikipedia.org/wiki/Biochemistry) supplies provided for a laboratory (http://en.wikipedia.org/wiki/Laboratory)
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Reagent Resource
type: NamedIndividual

Biomaterial Analysis Service
type: Class
subclass of: Computational Service
Definition: A resource that provides data from any biomaterial sample that was given to the service provider. This can also be a service that performs an experiment such as electrophysiological examination of LTP in a transgenic mouse. Viewing this as an input/output relationship the input would be a tissue or an animal and the output would be data.

Biomaterial Manufacture
type: Class
subclass of: Material Service
Definition: A resource that produces a product that is of organismal origin. An example of a biomaterial service is the production of a knockout mouse or cell culture. Note, for simplicity of definitions all molecules including antibodies and toxins are considered reagents even though some may have an organismal origin.

Biomaterial Supply Resource
type: Class
subclass of: Material Resource
Definition: A resource that provides access to physical materials like tissue samples or organisms. For example, the IMSR enables acquisition of a transgenic mouse or cell line. Note, for the sake of simplicity we have excluded molecules of organismal origin from this category as these can be manufactured chemically and have included them under the reagent category (eg. antibodies, toxins).

Biomedical Supply Resource
type: Class
subclass of: Material Resource
Definition: Biomedical (http://en.wikipedia.org/wiki/Biomedicine) supplies provided for a laboratory (http://en.wikipedia.org/wiki/Laboratory)
editorial note: pending final vetting: suggest to deprecate

Biomolecular Interaction Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to the study of interactions between molecules in biology.
editorial note: pending final vetting: Refine definition

Biosafety Level Facility
type: Class
subclass of: Facility Core
Definition: A resource that provides access to an enclosed facility that takes specified precautions for containment of dangerous biological agents, as defined by http://en.wikipedia.org/wiki/Biosafety_level

Book
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to a written or printed work of fiction or nonfiction, usually on sheets of paper fastened or bound together within covers.

Bug Reporting
type: Class
subclass of: Interactive Web-Based Tool
Definition: Resource that provides access to software, application, or toolkit that enable web-based tools that provide structure to indicate a problem or issue. Typically, bug reporting software provides a mechanism to indicate the severity of the problem and a contact person to review the issue.

CT Scanner
type: Class
subclass of: Instrument
subclass of: Medical Device
Definition: A measurement (or image acquisition) device that generates a three-dimensional image of the inside of an object from a series of two-dimensional X-ray images taken around a single axis of rotation.
editorial note: pending final vetting: location in hierarchy and harmonize with OBI/eagle-i

Calculation of Solvent Accessible Area
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that can be used to determine the surface area of a molecule such as DNA or protein.

Calendar Schedule and Resource Management
type: Class
subclass of: Data Service
Definition: A resource that provides functionality to allocate resources based on a method of timekeeping.

Calorimeter
type: Class
subclass of: Instrument
Definition: A measurement device that is used to calculate the heat flow of a chemical reaction or physical change.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Cardiovascular Facility
type: Class
subclass of: Physiology Facility
Definition: A physiology facility devoted to cardiovascular (http://en.wikipedia.org/wiki/Cardiovascular_disease) research.
editorial note: pending final vetting: Refine definition

Cardiovascular Model
type: Class
subclass of: Physioloigcal Model
Definition: Resource that provides access to software, applications, or toolkits that can be used to model physiological processes of the cardiovascular system.

Cell Biology Facility
type: Class
subclass of: Facility Core
Definition: A resource that provides access to instruments, technologies, facilities, and/or expert support devoted to cell biology (http://en.wikipedia.org/wiki/Cell_biology) research

Cell Culture Facility
type: Class
subclass of: Cell Biology Facility
Definition: A facility or core that provides resources for the growth of cells.

Cell Model
type: Class
subclass of: Physico-Chemical Model
Definition: Resource that provides access to software, applications, or toolkits that model the processes of a cell.

Cell Processing Clean Room Facility
type: Class
subclass of: Cell Biology Facility
Definition: A resource that provides access to an enclosed environment that has a low and controlled level of environmental pollutants such as dust, airborne microbes, aerosol particles and chemical vapors.

Centrality Analsysis
type: Class
subclass of: Deprecated Resource
Definition: A Resource that provides access to a graph algorithm that uses ranking of network elements to identify the importance of elements in a network.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Centrality Analysis
type: NamedIndividual

Centrality Analysis
type: Class
subclass of: Graph Algorithm
Definition: A Resource that provides access to a graph algorithm that uses ranking of network elements to identify the importance of elements in a network.

Certificate Program
type: Class
subclass of: Training Resource
Definition: A resource that provides a document that certifies completion of the program.

Chamber
type: Class
subclass of: Instrument
Definition: An instrument that forms an enclosed space.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Clinical Care Data
type: Class
subclass of: Data Resource
Definition: A resource that provides any type of data obtained in the course of caring for humans outside of measurements obtained in clinical trials.

Clinical Chart
type: Class
subclass of: Deprecated Resource
Definition: **previously was called Clinical_Charts_eg_Demographics we think this should be deleted
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Narrative Resource
type: NamedIndividual

Clinical Charts
type: Class
subclass of: Deprecated Resource
Definition: **previously was called Clinical_Charts_eg_Demographics we think this should be deleted
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Clinical Chart
type: NamedIndividual

Clinical Data
type: Class
subclass of: Deprecated Resource
Definition: Any type of data obtained in the course of caring for humans.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Clinical Care Data
type: NamedIndividual

Clinical Research Data
type: Class
subclass of: Data Resource
Definition: A resource that provides data on clinical trials and outcomes studies.

Clinical Trial Data
type: Class
subclass of: Deprecated Resource
Definition: A resource the provides access to data about subjects in a clinical trial; for example demographics, medical history, labs, procedures, etc.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Clinical Research Data
type: NamedIndividual

Code Profiler
type: Class
subclass of: Software Development Tool
Definition: A resource that provides a performance analysis tool that measures the behavior of a program as it executes, particularly the frequency and duration of function calls. The profiling process helps to determine which subroutines (or just snippets of code) take longest to execute and which subroutines are called most often. Code profilers are used when you suspect that some part of your code is called very often and maybe there is a need to optimize it, which could significantly improve the overall performance. Profilers use a wide variety of techniques to collect data, including hardware interrupts, code instrumentation, instruction set simulation, operating system hooks, and performance counters.

Code Testing Framework
type: Class
subclass of: Software Development Tool
Definition: A resource that provides a software environment created to investigate the quality of the product or service under test, with respect to the context in which it is intended to operate. This includes, but is not limited to, the process of executing a program or application with the intent of finding software bugs.

Communication Interface
type: Class
subclass of: Data Transfer and Communication
Definition: Resource that provides access to software, applications, or toolkits that enable electronic communication.

Communication and Collaborative Work
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to software, application, or toolkit that has mechanisms for sharing information between members of a group working on a shared project.

Community Structure Analysis
type: Class
subclass of: Graph Algorithm
Definition: Resource that provides access to a graph algorithm that identifies densely interlinked nodes in the graph.

Compiler
type: Class
subclass of: Software Development Tool
Definition: A resource that provides a computer program (or set of programs) that transforms source code written in a computer language (the source language) into another computer language (the target language, often having a binary form known as object code). The most common reason for wanting to transform source code is to create an executable program. A \\u201ccompiler\\u201d is primarily used for programs that translate source code from a high-level programming language to a lower level language (e.g., assembly language or machine language), and is likely to perform many or all of the following operations: lexical analysis, pre-processing, parsing, semantic analysis, code generation, and code optimization.

Computational Geometry
type: Class
subclass of: Image Algorithm
subclass of: Numerical Method
Definition: Resource that provides access to tools for computational geometric representation and analysis.

Computational Hosting
type: Class
subclass of: Hosting
editorial note: pending final vetting: propose definition

Computational Model
type: Class
subclass of: Structured Knowledge Resource
Definition: A resource that provides a simplified or symbolic representation of a system or phenomenon.

Computational Service
type: Class
subclass of: Service Resource
Definition: A resource that provides support for computer-related services such as database hosting and backup and disaster recovery.

Computer-Instrumentation Interface
type: Class
subclass of: Instrument
Definition: A part of an instrument that provides for human user input to operate the instrument.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Conference Proceeding
type: Class
subclass of: Narrative Resource
Definition: A resource the provides access to papers and/or talk and poster abstracts that are presented at a conference.

Conflict of Interest Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource that develops policies and procedures related to associations between academia and industry to ensure that the advantages of these connections are not being achieved at the expense of the fundamental values of objectivity in research.

Connectivity Matrix
type: Class
subclass of: Deprecated Resource
Definition: A matrix is a subset of a network that contains node-edge-node connections of interest and are represented as a matrix.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Contact Modeling
type: Class
subclass of: Mechanical Simulation
Definition: Resource that provides access to software, applications, or toolkits that simulate the effect of contact between objects. For example an articular contact model to study articular surface stresses.

Continuing Medical Education
type: Class
subclass of: Training Resource
Definition: A resource that provides post-grad education for physicians.

Continuous Data
type: Class
subclass of: Deprecated Resource
Definition: A data object that has infinite numbers of possible values. Quantitative data is often continuous such as weight, blood pressure.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Continuum Method Simulation
type: Class
subclass of: Mechanical Simulation
Definition: Resource that provides access to software, applications, or toolkits that uses all data points in a simulation.

Controllers
type: Class
subclass of: Mechanical Simulation
Definition: Resource that provides access to software, applications, or toolkits that use controllers in the performance of a simulation.

Convolution
type: Class
subclass of: Image Algorithm
subclass of: Numerical Method
Definition: Resource the provides access to tools or functions that implements the canonical convolution or operation that describes the action of a linear system on a signal.

Cortical Modeling
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that perform detection, extraction, representation and analysis of cortical brain structure.

Course Material
type: Class
subclass of: Education
Definition: Resource that provides access to educational material that can be used to disseminate information about a course of study.

Cross-Language Wrapping
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software, application, or toolkit that enables an interactive software development tool that creates language bindings.

Cross-Platform Tool
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software, application, or toolkit that enables an interactive software development tool that runs on different computer operating systems.

Cross-Sectional Viewer
type: Class
subclass of: Imaging
Definition: Resource that provides access to data visualization tools relying on displays of lower-dimensional cross-sectional (hyper)planes.

Data Acquisition Software
type: Class
subclass of: Software
Definition: Resource that provides access to software or application that support collection of real-world conditions and converts these to a numerical representation that can be processed by a computer, http://en.wikipedia.org/wiki/Data_acquisition.
editorial note: pending final vetting: review term in comparison to siblings data analysis software and data processing software

Data Analysis Software
type: Class
subclass of: Software
Definition: A resource that provides access to software or application that is used to analyze, model, and transform data with the goal of testing a research hypothesis, highlighting useful information, suggesting conclusions, or supporting decision making.

Data Annotation
type: Class
subclass of: Ontology Development and Management
Definition: Resource that provides access an interactive software tool that enables tagging data with ontology terms.

Data Compression
type: Class
subclass of: Data Processing Software
Definition: Resource that provides access to software, applications, or toolkits that reduces the bits (information units) needed to encode the data.

Data Computation Service
type: Class
subclass of: Computational Service
Definition: A resource that provides calculating or processing over a data input, such as interpreting EEG data. Note, this may include human and/or computer expertise, so that a software tool may be included as a data computation service.

Data Distribution
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides data or allows users to access and utilize data
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Data Editor
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to software, application, or toolkit that is able to alter information.

Data Exploration
type: Class
subclass of: Visualization
Definition: Resource that provides access to a visualization tool that is able to display data as an image or graphical representation.

Data Mining and Inference
type: Class
subclass of: Data Analysis Software
subclass of: Statistical Analysis
Definition: A resource that provides access to software, application, or toolkits that merge data with analysis tools with the goal of testing a research hypothesis, highlighting useful information, suggesting conclusions, or supporting decision making.
editorial note: pending final vetting: review location in hierarchy and child terms

Data Normalization
type: Class
subclass of: Signal Processing
Definition: Resource that provides access to software, applications, or toolkits that reduces systematic sources of variation from data.

Data Object
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides computational building blocks for complex data types, individual facts, statistics or items of information.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Data Processing Software
type: Class
subclass of: Software
Definition: A resource that provides access to software or application that is used to convert or manipulate data into information or knowledge.

Data Repository
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides data storage and maintenance, such as a database which accepts submissions of similar data for storage and use. For example, the cell centered database (CCDB) encourages submissions of anatomical images that will increase its' holdings.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Database
type: NamedIndividual

Data Resource
type: Class
subclass of: Information Resource
Definition: A resource that provides individual facts, statistics or items of information.

Data Service
type: Class
subclass of: Computational Service
Definition: A resource that provides data management and specialized use.
editorial note: pending final vetting: review location in hierarchy

Data Storage
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
Definition: thing stores data
deprecated: true
replacedBy: Data Storage Repository
replacedBy: Data Storage Service
type: NamedIndividual

Data Storage Repository
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides access through the Internet or archive to formatted digital or textual data.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Database Software
type: NamedIndividual

Data Storage Service
type: Class
subclass of: Service Resource
Definition: A resource that provides data storage and maintenance, such as a database that accepts submissions of similar data for storage and use. For example, the cell centered database (CCDB) encourages submissions of anatomical images that will increase its' holdings.

Data Transfer and Communication
type: Class
subclass of: Software
Definition: A resource that provides access to software or application that is used to transmit formatted textual or binary data.

Data Transform
type: Class
subclass of: Pre-Processing
Definition: Resource that provides access to software, applications, or toolkits that general data transformations.

Data Transforms
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
Definition: General data transformations
deprecated: true
replacedBy: Data Transform
type: NamedIndividual

Data Visualization
type: Class
subclass of: Data Processing Software
Definition: Resource that provides access to software, applications, or toolkits that present information as an image.

Database
type: Class
subclass of: Structured Knowledge Resource
Definition: A data resource that delivers its' data by way of a 'database', which involves a structured data store and interrogation methods for data selection.
alternative label: Data Repository

Database Hosting
type: Class
subclass of: Hosting
Definition: A resource that provides space for and access to a database.

Database Software
type: Class
subclass of: Software
Definition: A resource that provides access to software, applications, or toolkits that are used in the development of database management systems.

Deep Parsing
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that detect relationships between language constructs.

Delimited Table
type: Class
subclass of: Structured File
Definition: A resource that provides access to structured data that is separated by a sequence of one or more characters to mark the boundary between plain text or data streams.

Deprecated Data Resource
type: Class
subclass of: Deprecated Resource
history note: Created in BRO v2.7
Definition: Former subclasses of BRO:Data_Resource that have been deprecated and their usage is not recommended.
deprecated: true

Deprecated Resource
type: Class
Definition: Former subclasses of BRO:Resource that have been deprecated and their usage is not recommended.
deprecated: true

Disaster Recovery Service
type: Class
subclass of: Computational Service
Definition: A resource that provides the ability to retrieve archived content in the event of a disaster that impacts the system in question.

Discrete Data
type: Class
subclass of: Deprecated Resource
Definition: A data object that consists of separate, but finite set of values.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Dissemination Vehicle
type: Class
subclass of: Data Transfer and Communication
Definition: Resource that provides access to Community and User Interaction Systems, educational resources and web-services.

Document
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides any kind written item, as a book, article, or letter, esp. of a factual or informative nature.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Bibliographic Resource
type: NamedIndividual

Document Generation
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software, application, or toolkit that enables a software development tool that is able to generate textual information when included in computer source code as specially formatted comments.

Document Retrieval
type: Class
subclass of: Searching Sorting and Indexing
Definition: Resource that provides access to software, applications, or toolkits that provides an electronic document or file in response to a query.
editorial note: pending final vetting: review location in hierarchy

Document Structure Parsing
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that analyze and report on document structure.

Documentation Generation
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software, application, or toolkit that enables a software development tool create documentation of software source code.

Drug Delivery Device
type: Class
subclass of: Instrument
Definition: An instrument that is used to administer a drug.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Dynamic Model
type: Class
subclass of: Computational Model
Definition: A resource that provides a simplified or symbolic representation representing the states of a system or network over time.

EDA
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software, applications, or toolkits that performs exploratory data analysis methods.
deprecated: true
replacedBy: Exploratory Data Analysis
type: NamedIndividual

Education
type: Class
subclass of: Dissemination Vehicle
Definition: Resource that provides access to educational resources (incl. book, magazines, audio, video, digital streams, etc.),

Electrode Holder
type: Class
subclass of: Instrument
Definition: An instrument that provides a means of coupling fluid-filled glass microelectrodes to a patch clamp amplifier for the measurement of electrical currents or potentials. Holders are available in straight angle configurations made out of polycarbonate or Teflon, and usually feature a silver/ silver chloride pellet attached to a BNC-compatible pin/ending. A suction port is standard for holders meant for patch clamp recordings, but are not included in holders meant for sharp electrode recordings or extracellular recordings.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Electrode Puller
type: Class
subclass of: Instrument
Definition: An instrument to make micropipettes.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Electron Microscope In version 3.2
type: Class
subclass of: Microscope
Definition: A microscope that produces an electronically-magnified image of a specimen for detailed observation. In version 3.2
alternative label: EM
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Environmental Health and Safety Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource that provides services to ensure research is conducted in accordance with environmental and safety standards (e.g. laboratory safety procedures, radiation safety procedures, disposal protocols, etc).

Experimental Measurement
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides access to data from individual experiments.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Molecular and Cellular Data
type: NamedIndividual

Experimental Protocol
type: Class
subclass of: Narrative Resource
Definition: A resource that provides detailed plans for a scientific experiments, medical trials, or other pieces of research.

Expertise
type: Class
subclass of: Non Computational Service
Definition: A resource as an expert (http://en.wikipedia.org/wiki/Expert) who can answer questions, provide technical assistance, etc.
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Resource
type: NamedIndividual

Exploratory Data Analysis
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that performs exploratory data analysis methods.

Fabrication Facility
type: Class
subclass of: Facility Core
Definition: A facility core devoted to creating, manufacturing, building or assembling resources used in scientific research.

Facility Core
type: Class
subclass of: Material Resource
subclass of: Service Resource
Definition: A resource that provides instruments, technologies, facilities, and/or expert support for a specific area of research.
comment: As defined in http://dictionary.reference.com/browse/facility
editorial note: pending final vetting: suggest to re-name to Core Facility, discuss how to manage change.

Faraday Cage
type: Class
subclass of: Instrument
Definition: An enclosure, formed by conducting material or by a mesh of such material, that blocks out external static electric fields.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Fast Fourier Transform
type: Class
subclass of: Image Algorithm
subclass of: Numerical Method
Definition: Resource that provides access to tools or functions that compute the discrete Fourier transform (DFT) and its inverse.

Feature Analysis
type: Class
subclass of: Computational Geometry
Definition: Resource that provides access to methods for automated analysis of object features and quantitative characterization of data.

Feature Request
type: Class
subclass of: Interactive Web-Based Tool
Definition: Resource that provides access to software, application, or toolkit that enable interactive web-based tool that has functionality to collect a request for new features for a specified tool.

Federal Funding Resource
type: Class
subclass of: Funding Resource
Definition: A funding resource where money is obtained from the central government.

Filtering
type: Class
subclass of: Pre-Processing
Definition: Resource that provides access to software, applications, or toolkits that perform alter the spatial-temporal spectral content of data.

Finite Element Model
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that can be used to generate approximate solutions of partial differential equations.

Flatfile Distribution
type: Class
subclass of: Structured File
Definition: A resource that provides access to structured data that is found in separate, unlinked files that is accessible via the internet.

Flow Cytometry Cell Sorting Facility
type: Class
subclass of: Cell Biology Facility
Definition: A facility or core devoted to analysis of cells by suspension of the cells in a stream of fluid and passing them by an electronic detection apparatus (flow cytometer).
editorial note: pending final vetting: consider changing name to Flow Cytometry Facility

Four Dimensional Data
type: Class
subclass of: Deprecated Resource
Definition: 3-D models evolving in time
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Fourier Transform
type: Class
subclass of: Spectral Transform
Definition: Resource that provides access to software, applications, or toolkits that performs Multi-dimensional Fourier transform

Free Text
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Unstructured data in a format of alphanumeric characters.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Funding Resource
type: Class
subclass of: Resource
Definition: A resource that provides monetary support in the form of grants, contracts, or gifts for research, training, or education.
comment: As per alignment with NIF resource type hierarchy.
cui: X123456
has STY: http://bioportal.bioontology.org/ontologies/umls/sty/T028
editorial note: pending final vetting: are more subclasses needed, e.g. Foreign_Funding_Resource and Local_Funding_Resource

Gene Expression
type: Class
subclass of: Molecular and Cellular Data
Definition: A resource that provides data on the abundance of RNA that is coded from genes.

Gene Therapy Facility
type: Class
subclass of: Cell Biology Facility
Definition: A facility or core for generating recombinant vectors containing a functioning copy of a human gene.

Genomic Phenotypic Analysis
type: Class
subclass of: Data Analysis Software
Definition: A resource that provides access to software or application that is used to analyze and model biological processes at the genomic, molecular, cellular, tissue level, or population levels.

Genomics Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to the study of genomics (http://en.wikipedia.org/wiki/Genomics)
editorial note: pending final vetting: Refine definition

Government Publication
type: Class
subclass of: Narrative Resource
Definition: A resource the provides access to a publicly available document that is generated by a governing entity.

Grant Preparation Expertise
type: Class
subclass of: People Resource
Definition: A resource or expertise relating to grant preparation (http://en.wikipedia.org/wiki/Grant_(money))
editorial note: pending final vetting: refine definition

Graph Algorithm
type: Class
subclass of: Algorithm
Definition: Resource that provides access to methods of analysis or generation of networks and graph data structures.

Graph Alignment
type: Class
subclass of: Graph Algorithm
Definition: Resource that provides access to a graph algorithm that compares the similarity of graphs to each other.

Graph Analysis
type: Class
subclass of: Graph Algorithm
Definition: Resource that provides access to software, applications, or toolkit that analyze biological graphs.

Graph Viewer
type: Class
subclass of: Visualization
Definition: Resource that provides access to general graph visualization methods.

Graph Viewers
type: Class
subclass of: Interactive Tools
history note: Deprecated for BRO v2.7
Definition: General graph visualization resources
deprecated: true
replacedBy: Graph Viewer
type: NamedIndividual

Graphical Composition
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to software, application, or toolkit that enable graphical composition of applications.

Graphical Integration
type: Class
subclass of: Integration
Definition: Resource that provides access to software, application, or toolkit that enables software or application integration using graphical methods.

Graphical Processing Workflow Environments
type: Class
subclass of: Pipeline Manager
Definition: Resource that provides access to software, applications, or toolkits that enable integration and interoperability tools that facilitate communication between software tools via graphical workflow pipelines.
editorial note: pending final vetting: review definition

Grid Computing
type: Class
subclass of: Computational Service
Definition: A resource that provides a combination of computational resources from multiple administrative domains, applied to a common task.

Heat Map
type: Class
subclass of: Visualization
Definition: Resource that provides access to an interactive visualization tool that represents variables in a 2-D graph as colors.

Heterogeneous Funding Resource
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Funding Resource
type: NamedIndividual

Hierarchical Tree
type: Class
subclass of: Hyperbolic Graph
Definition: Resource that provides access to viewers of directed, acyclic tree-structures.

High Dimensional Data
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Discrete data that contains many variables.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Homology Modeling
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that uses a proteins amino acid sequence and an experimental three-dimensional structure of a related homologous protein to generate an atomic-resolution model of the protein.

Hosting
type: Class
subclass of: Computational Service
Definition: A resource that provides a server for data or programs that another computer can access by means of a network.

Human Embryonic Stem Cell Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource that provides guidance and information regarding the use of embryos or human embryonic stem cells in research.

Human Studies Compliance Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource that provides guidelines and information related to research involving humans with the aim to protect the rights and welfare of research subjects. Such resources could supply consent forms, patient questionnaires, assist in ethical protocol designs, host seminars on conducting human studies, etc.

Hyperbolic Graph
type: Class
subclass of: Graph Viewer
Definition: Resource that provides access to hyperbolic space (hierarchical) graph/tree visualization tools.

Hypothesis Testing Algorithm
type: Class
subclass of: Statistical Algorithm
Definition: Resource that provides access to tools or functions for testing statistical hypothesis against data.

Identity Management
type: Class
subclass of: Data Service
Definition: A resource that provides software which maintains the identity of a software user with their software account.

Image
type: Class
subclass of: Unstructured Knowledge Resource
Definition: A resource that provides data in the form of images.
editorial note: pending final vetting: review location in hierarchy

Image Algorithm
type: Class
subclass of: Algorithm
Definition: Resource that provides access to methods basic numerical analysis or other canonical computational methods that act on 1, 2, 3 or 4 dimensional images.

Image Processing
type: Class
subclass of: Data Processing Software
Definition: Resource that provides access to software, applications, or toolkits that performs image post processing (i.e., excludes image generation).
editorial note: pending final vetting: review location in hierarchy

Image Reconstruction
type: Class
subclass of: Image Algorithm
Definition: A resource that provides access to tools or function that are used to reconstruct 2D and 3D images based on projections of an object.

Imaging
type: Class
subclass of: Visualization
Definition: Resource that provides access to software, application, or toolkit that enable visualization methods for imaging data.
editorial note: pending final vetting: rename this Imaging_Software (at least as it occurs in Software tree)?

Imaging Facility
type: Class
subclass of: Facility Core
Definition: A facility or core for biomedical imaging.

Immune Monitoring Facility
type: Class
subclass of: Cell Biology Facility
Definition: A facility or core devoted to assessing effects on the human immune system (immunogenicity, immunocompetence, immune reconstitution, immunotoxicity, and immunopathology) of particular importance in the study of disease and therapeutics.

Immunohistochemistry Facility
type: Class
subclass of: Tissue Organ Facility
Definition: A facility or core devoted to localizing antigens (eg. proteins) in cells of a tissue section through antibodies binding specifically to antigens.

Individual Human Data
type: Class
subclass of: Clinical Care Data
Definition: A resource that provides clinical care data at the level of an individual.

Industry Partnership Expertise
type: Class
subclass of: People Resource
Definition: Expertise for liaison with Industry (http://en.wikipedia.org/wiki/Industry)
editorial note: pending final vetting: refine definition

Inference From Data
type: Class
subclass of: Data Mining and Inference
Definition: Resource that provides access to software, applications, or toolkits, that generate a conclusion or finding based on applying logics and statistics to observations/hypothesis.

Information Resource
type: Class
subclass of: Resource
Definition: A resource that provides data, knowledge or narrative.
comment: As per alignment with NIF resource type hierarchy.
has db xref: hasDbXref0000001

Information Retrieval
type: Class
subclass of: Data Mining and Inference
Definition: Resource that provides access to software, applications, or toolkits that searches documents for information within the document and metadata about the document.

Inhomogeneity Correction
type: Class
subclass of: Pre-Processing
Definition: Resource that provides access to software, applications, or toolkits that performs methods for correction of image intensities where non-biological and non-physiological drift or noise is introduced by the scanning hardware.

Instrument
type: Class
subclass of: Material Resource
Definition: A resource that provides scientific instruments such as microscopes, amplifiers or dissection tools. For example, Grass Instruments is a site that sells amplifiers and other equipment useful for electrophysiology. From NIFSTD
editorial note: pending final vetting: review scope of BRO for child terms

Instrument Manufacture
type: Class
subclass of: Material Service
Definition: A resource that provides the manufacture of a piece of hardware. An example is producing a made to order microarray chip.

Integrated Hosting
type: Class
subclass of: Hosting
Definition: Cloud computing
editorial note: pending final vetting: refine definition

Integration
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software, application, or toolkit that enables a software development tool that combines software documentation with generating source code.

Integration and Interoperability Tool
type: Class
subclass of: Software
Definition: A resource that provides access to software or application that is used to enable (i) interoperability and association of data and/or (ii) pipeline of online tools.

Integration and Interoperability Tools
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
Definition: These are resources that allow tool interoperability and resource integration and data mediation.
deprecated: true
replacedBy: Integration and Interoperability Tool
type: NamedIndividual

Intellectual Property Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource that provides legal counsel regarding contracts and agreements between an institution and various external parties. These resources may provide legal seminars along with training materials regarding intellectual property.

Interaction Modeling
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that model or simulate interaction between biological components such as genes, proteins, cells, organs, populations.

Interaction Network
type: Class
subclass of: Network Model
Definition: A resource that provides a network model that includes nodes and edges based on physical interactions between the entities represented by the nodes.

Interactive Network Analysis
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to software, application, or toolkit that analyze networks interactively with a user.

Interactive Tool
type: Class
subclass of: Software
Definition: Resource that provides access to software, applications, or toolkits that are used to enable user input of data and display corresponding information.

Interactive Tools
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Interactive Tool
type: NamedIndividual

Interactive Web-Based Tool
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to software, application, or toolkit that enables hands-on resources for data management (entry, query, traversal, comparison, etc.)

Journal Article
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to reports that are published journals

Knowledge Environment
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides access to collaborative knowledge building, decision making, inference or discovery tools.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Structured Knowledge Resource
type: NamedIndividual

Knowledge Extraction
type: Class
subclass of: Text Mining
Definition: Resource that provides access to software, applications, or toolkits that recognize and report on entities and relations in text corpora.

Knowledge Mining and Capturing
type: Class
subclass of: Interactive Tool
subclass of: Software
Definition: Resource that provides access to software, applications, or toolkits that are used to extract hidden patterns from data.

Knowledgebase
type: Class
subclass of: Structured Knowledge Resource
Definition: A resource that provides access to facts and/or information, often in the form of rules that describe the knowledge in a logically consistent manner.

Laboratory Supply Resource
type: Class
subclass of: Material Resource
Definition: A resource that provides items such as reagents, instruments, tissue samples or organisms for use in a laboratory.

Language Summarization
type: Class
subclass of: Natural Language Processing
Definition: Resource that provides access to applications, libraries, or software that creates a shortened version of text.

Lexical Analysis
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that converts a sequence of characters into a sequence of tokens.

License
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to documented permission to do something, either from a government or under a law or regulation.

License and Terms for Redistribution
type: Class
subclass of: Deprecated Resource
Definition: A license that describes the constraints for sharing the resource.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: License
type: NamedIndividual

License and Terms for Use
type: Class
subclass of: Deprecated Resource
Definition: A license that describes the constraints for using the resource.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: License
type: NamedIndividual

Light Microscope
type: Class
subclass of: Microscope
Definition: A microscope (device to magnify small objects) in which objects are lit directly by white light.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Linear Algebra Tool
type: Class
subclass of: Numerical Method
Definition: A resource which provides access to tools or functions that compute linear calculations on vector spaces.

Linear Algebra Tools
type: Class
subclass of: Numerical Methods
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Linear Algebra Tool
type: NamedIndividual

MRI Scanner
type: Class
subclass of: Instrument
subclass of: Medical Device
Definition: A measurement (or image acquisition) device that visualizes detailed internal structure and limited function of the body, using a powerful magnetic field to align the nuclear magnetization of (usually) hydrogen atoms in water in the body.
editorial note: pending final vetting: location in hierarchy and harmonize with OBI/eagle-i

Mailing List
type: Class
subclass of: Interactive Web-Based Tool
Definition: Resource that provides access to software, application, or toolkit that enable interactive Web-based tool that can be used to send information to groups.

Manifold Viewer
type: Class
subclass of: Imaging
Definition: Resource that provides access to general (hyper)volume visualization tools (e.g., volume rendering).

Manifold Viewers
type: Class
subclass of: Interactive Tools
history note: Deprecated for BRO v2.7
Definition: General (hyper)volume visualization tools (e.g., volume rendering).
deprecated: true
replacedBy: Manifold Viewer
type: NamedIndividual

Mapper
type: Class
subclass of: Integration
Definition: Resource that provides access to software, application, or toolkit that enables application integration using mapping.

Mass Spectra Identification
type: Class
subclass of: Searching Sorting and Indexing
Definition: Resource that provides access to software, applications, or toolkits that calculates mass spectra sequence and related data from experimental mass spectra data.

Mass Spectrometer
type: Class
subclass of: Instrument
Definition: A mass spectrometer is an instrument which is used to measure the mass to charge ratio of ions. All mass spectrometers consist of three basic parts: an ion source, a mass analyzer, and a detector system.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Material Analysis Service
type: Class
subclass of: Computational Service
Definition: A resource that provides data from any material sample that was given to the service provider. This can also be a service which performs an experiment such as electrophysiological examination of LTP magnitude in the presence of a drug given to the service provider. Viewing this as an input/output relationship the input would involve a drug and the output would be data such as a dose response curve.

Material Resource
type: Class
subclass of: Resource
Definition: A resource that provides items such as reagents, instruments, tissue samples or organisms.
comment: As per alignment with NIF resource type hierarchy.
notation: BRO:0000001

Material Service
type: Class
subclass of: Service Resource
Definition: A resource that provides a service the output of which is a material object. That material object might be an instrument, a chemical, or an animal.

Material Storage Service
type: Class
subclass of: Service Resource
Definition: A resource that provides material storage, maintenance and retrieval, such as the Harvard brain tissue bank.

Matrix
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: The dimensions of the array in computer memory used to store the data acquired during a pulse sequence. Related to the number of phase-encoding steps, frequency-encoding points and number of slices.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Mechanical Simulation
type: Class
subclass of: Physico-Chemical Model
Definition: Resource that provides access to software, applications, or toolkits that model mechanical forces.

Medical Device
type: Class
subclass of: Material Resource
Definition: A resource that provides devices used for therapy, diagnosis or surgery.

Mesh Model
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that model or simulate biological processes using computational meshes.

Meshing
type: Class
subclass of: Mechanical Simulation
Definition: Resource that provides access to software, applications, or toolkits that create meshes in biological systems.

Metabolism Facility
type: Class
subclass of: Physiology Facility
Definition: A physiology facility devoted to research into metabolism (http://en.wikipedia.org/wiki/Metabolism)
editorial note: pending final vetting: Refine definition

Metabolomics Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to metabolomics (http://en.wikipedia.org/wiki/Metabolomics)
editorial note: pending final vetting: Refine definition

Micro Dissection Facility
type: Class
subclass of: Tissue Organ Facility
Definition: A facility or core devoted to cutting apart tissue on a very small scale such as at the level of individual cells.

Microarray Scanner
type: Class
subclass of: Instrument
Definition: An instrument which acquires images of fluorescence (induced with lasers) from labeled molecules on the surface of the microarray chip.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Micromanipulator
type: Class
subclass of: Instrument
Definition: An instrument that is used to physically interact with a sample under a microscope, where a level of precision of movement is necessary that cannot be achieved by the unaided human hand.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Microscope
type: Class
subclass of: Instrument
Definition: An instrument used to obtain a magnified image of small objects and reveal details of structure not otherwise distinguishable.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Microscopy Facility
type: Class
subclass of: Cell Biology Facility
Definition: A facility that provides microscopes with which to view samples or objects.

Microtome
type: Class
subclass of: Instrument
Definition: An instrument used to cut very fine sections of material.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Model Fitting Algorithm
type: Class
subclass of: Statistical Algorithm
Definition: A resource that provides tools or functions that aligns data with a model of the data.

Model with Closed Form Solutions
type: Class
subclass of: Modeling and Simulation
subclass of: Symbolic and Analytic Model
Definition: Resource that provides access to software, applications, or toolkits that calculate solutions to models with closed form.
editorial note: pending final vetting: review location in hierarchy

Modeling and Simulation
type: Class
subclass of: Software
Definition: Resource that provides access to software, applications, or toolkits that is used to model or simulate biological structures, kinetics, function, structure, random events, and genotype or phenotype in time and space.

Modular Component
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to a software component.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Molecular Biology Facility
type: Class
subclass of: Facility Core
Definition: A facility or core devoted to molecular biology (http://en.wikipedia.org/wiki/Molecular_biology)
editorial note: pending final vetting: Refine definition

Molecular Dynamics
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that involves atoms and molecules are allowed to interact for a period of time by approximations of known physics.

Molecular Force Field Calculator
type: Class
subclass of: Mechanical Simulation
Definition: Resource that provides access to software, applications, or toolkits that calculate molecular forces in a biomolecular system.

Molecular Interaction. In version 3.2.
type: Class
subclass of: Molecular and Cellular Data
Definition: A resource that provides data related to the measurement of interaction between molecules of any type. In version 3.2.

Molecular Model
type: Class
subclass of: Physico-Chemical Model
Definition: Resource that provides access to software, applications, or toolkits that calculate time course of physico-chemical model that representation of a molecule or of the arrangement of molecules in a solid substance, with the purpose of visualizing some of its properties, such as the nature and relative positions of its atoms, the chemical bonds between them, the three-dimensional shape of the molecule, and how its shape can change by bending or rotation of the bonds.

Molecular Modeling and Classification
type: Class
subclass of: Molecular Model
Definition: Resource that provides access to software, applications, or toolkits that calculate the time course of biomolecular configurations and their classification.
editorial note: pending final vetting: review definition

Molecular Trajectories
type: Class
subclass of: Deprecated Data Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Molecular Trajectory Data
type: NamedIndividual

Molecular Trajectory Data
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides access to kinetic information, usually quantitative, regarding biological system components over time.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Dynamic Model
type: NamedIndividual

Molecular Visualization
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that can be used to visualize a configuration of biomolecules in space and time.

Molecular and Cellular Data
type: Class
subclass of: Data Resource
Definition: A resource that provides data related to molecular and cellular properties and their relationship to macroscopic parameters.

Monoclonal Antibody Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to monoclonal antibody (http://en.wikipedia.org/wiki/Monoclonal_antibody) research and uses.
editorial note: pending final vetting: Refine definition

Monte Carlo Simulation
type: Class
subclass of: Numerical Method
Definition: A resource that provides access to tools or functions that model biological processes that involves random sampling in the algorithm.

Multibody Dynamics
type: Class
subclass of: Mechanical Simulation
Definition: Resource that provides access to software, applications, or toolkits that can be used to calculate the time course of multibody dynamics.

NMR Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to NMR (http://en.wikipedia.org/wiki/Nuclear_magnetic_resonance) research
editorial note: pending final vetting: Refine definition

NMR Instrument
type: Class
subclass of: Instrument
Definition: An instrument used to perform NMR of a sample.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Named Entity Normalization
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that map the recognized entities to unambiguous references to real world entities.

Named Entity Recognition
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that attempts to identify and classify atomic elements in text into predefined categories such as the organizations, locations, expressions of times, quantities, and names of people.

Narrative Resource
type: Class
subclass of: Information Resource
Definition: A resource that provides a literary work, book, story, textual description, or account of events, experiences, or the like, whether true or fictitious.
editorial note: Work with NIF to define blog and wiki.

Natural Language Processing
type: Class
subclass of: Data Analysis Software
Definition: A resource that provides access to software, library, or application that interprets human (natural) language into a machine-interpretable form.

Network Characterization
type: Class
subclass of: Genomic Phenotypic Analysis
Definition: Resource that provides access to tools or functions that describe a connectivity between components at the genomic, molecular, cellular, tissue level, or population levels.

Network Editor
type: Class
subclass of: Deprecated Resource
Definition: Deprecate
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Editor
type: NamedIndividual

Network Interaction Model
type: Class
subclass of: Physico-Chemical Model
Definition: Resource that provides access to software, applications, or toolkits that can be used model a molecular, cellular, organ, or population network.

Network Model
type: Class
subclass of: Computational Model
Definition: A resource that provides access to a computational model representing objects and their relationships.
editorial note: Proposed children: - Bayesian network - Correlation network - Pathway network - Causality network e.g. Sage Bionetworks will be publishing exactly these types of models.

Network and Communication
type: Class
subclass of: Computational Service
Definition: A resource that provides access to or support for a system of interconnected computers able to share information.

Network model
type: Class
subclass of: Deprecated Data Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Network Model
type: NamedIndividual

Neurological Facility
type: Class
subclass of: Physiology Facility
Definition: A physiology facility devoted to neurology (http://en.wikipedia.org/wiki/Neurology) research
editorial note: pending final vetting: Refine definition

Neuromuscular Model
type: Class
subclass of: Physioloigcal Model
Definition: Resource that provides access to software, applications, or toolkits that can be used to model combined biomechanical and neurological system.

News
type: Class
subclass of: Web Posting
Definition: Resource that provides news and RSS feed resources

Next Generation Sequencer
type: Class
subclass of: Instrument
Definition: Next generation of High throughput DNA sequencer (http://en.wikipedia.org/wiki/DNA_sequencing)
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Non Computational Service
type: Class
subclass of: Deprecated Resource
Definition: Biomedical Resources which are not predominantly computing (http://en.wikipedia.org/wiki/Computing) in nature.
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Resource
type: NamedIndividual

Nonhuman Data
type: Class
subclass of: Deprecated Resource
Definition: Clinical data that is not derived from a person.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Clinical Research Data
type: NamedIndividual

Numerical Calculation of Electrostatic Potential
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that can be used to calculate the electrostatic potential of biomolecular configurations.

Numerical Integrator
type: Class
subclass of: Numerical Method
Definition: Resource that provides access to tools or functions that calculate the numerical value of a definite integral.

Numerical Integrators
type: Class
subclass of: Numerical Methods
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Numerical Integrator
type: NamedIndividual

Numerical Method
type: Class
subclass of: Algorithm
Definition: Resource that provides access to methods of numerical analysis or computational tools (ala, GAMS: http://gams.nist.gov/).

Numerical Methods
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
Definition: General numerical modeling and computational tools (ala, GAMS: http://gams.nist.gov/)
deprecated: true
replacedBy: Numerical Method
type: NamedIndividual

Numerical Model
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that generate solutions from a numerical model.

Nutrition Facility
type: Class
subclass of: Physiology Facility
Definition: A physiology facility devoted to nutrition (http://en.wikipedia.org/wiki/Nutrition) research
editorial note: pending final vetting: Refine definition

Object Database
type: Class
subclass of: Database
Definition: A resource that provides access to a database that represents information in the form of objects.

Online Course
type: Class
subclass of: Web Posting
Definition: Resource that provides online training and educational resources.

Online Support
type: Class
subclass of: Interactive Web-Based Tool
Definition: Resource that provides access to software, application, or toolkit that enable help via internet accessible material.

Ontology
type: Class
subclass of: Structured Knowledge Resource
Definition: A resource that provides access to a set of concepts within a domain and the relationships between those concepts, used to reason about the objects within that domain.

Ontology Development
type: Class
subclass of: Ontology Development and Management
Definition: Resource that provides access to ontology and development management tool that allows a user to develop a set of terms, and the hierarchial relationship between them as well as metadata about the terms.

Ontology Development and Management
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software development tool that can be used to build a set of terms and specify the relationship between the terms.

Ontology Diff and Alignment
type: Class
subclass of: Ontology Development and Management
Definition: Resource that provides access to an ontology and development management tool that identifies differences between two ontologies.

Ontology Visualization
type: Class
subclass of: Ontology Development and Management
Definition: Resource that provides access to a ontology development and management tool that is used to generate an image of the ontology.

Optimizer
type: Class
subclass of: Numerical Method
Definition: A resource that provides access to a tool or function that locates the extremum (usually minimum) of a cost function subject to constraints.,

Oscillograph
type: Class
subclass of: Instrument
Definition: An instrument for measuring alternating or varying electric current in terms of current and voltage.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Oscilloscope
type: Class
subclass of: Instrument
Definition: An electronic measuring instrument that creates a visible two-dimensional graph, on a screen, of one or more continuously varying voltages or currents.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Outlier Detection and Removal
type: Class
subclass of: Signal Processing
Definition: Resource that provides access to software, applications, or toolkits that perform quality assurance on data to detect and/or remove outliers.

Outreach Program
type: Class
subclass of: Training Resource
Definition: A resource that provides general education to the public.

PCR Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to PCR (http://en.wikipedia.org/wiki/PCR)
editorial note: pending final vetting: Refine definition

PCR Instrument
type: Class
subclass of: Instrument
Definition: An instrument based on the PCR method (http://en.wikipedia.org/wiki/PCR)
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

PDE Solver
type: Class
subclass of: Numerical Method
Definition: A resource that provides access to a tool or function that generates the solution of a partial differential equation subject to appropriate parameters and initial or boundary conditions.

PET Scanner
type: Class
subclass of: Instrument
subclass of: Medical Device
Definition: A measurement (or image acquisition) device that produces a three-dimensional image or picture of functional processes in the body. It detects pairs of gamma rays emitted indirectly by a positron-emitting radionuclide (tracer), which is introduced into the body on a biologically active molecule.
editorial note: pending final vetting: location in hierarchy and harmonize with OBI/eagle-i

Paper
type: Class
subclass of: Narrative Resource
Definition: An unpublished document, which may also be submitted to a publisher for publication.

Parsing
type: Class
subclass of: Natural Language Processing
Definition: Resource that provides access to applications, libraries, or software that analyze text to detect language constructs or tokens such as noun phrases and verbs.

Partial Parsing
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that parse part of a text or corpus.

Pass Through License
type: Class
subclass of: Deprecated Resource
Definition: A license that grants the right of usage from a third party distributor to the end user.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: License
type: NamedIndividual

Patent
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to documents describing the exclusive right granted by a government to an inventor to manufacture, use, or sell an invention for a certain number of years.

Pathology Laboratory Screening
type: Class
subclass of: Material Service
Definition: A resource that provides the analysis of biological samples. An example is genotyping transgenic mice.

Pattern Inference Algorithm
type: Class
subclass of: Statistical Algorithm
Definition: A resource that provides access to tools or functions that derive reduced significant information about experimental or synthetic data.

Pattern Recognition
type: Class
subclass of: Computational Geometry
Definition: Resource that provides access to tools for the representation, modeling, analysis and visualization of biological patterns out of data.

Pattern and Motif Inference
type: Class
subclass of: Inference From Data
Definition: Resource that provides access to software, applications, or toolkits that generate patterns or motifs based on applying logics and statistics to observations/hypothesis.

People Resource
type: Class
subclass of: Resource
Definition: A resource comprised of one or more individuals who have specific expertise and provide professional or expert advice.
comment: As per alignment with NIF resource type hierarchy.
notation: BRO:0000002
editorial note: I spent some time thinking about the distinction between People Resources and Services Resources. Then I spent some time thinking of what would be subclasses of people. Below is the list I came up with. However, it bares striking similarity to what we had envisioned for Related Activity or Area of Research. Looking over at NIF, they defined People Resource as "A resource that provides access to individual people based, for example, on expertise or affiliation" and do not have any child nodes. I think I've come around to the opinion that we should either adopt NIF's approach, or change from having the top level People Resource to Consulting Resource as a child of Service Resource. (then still tbd whether to have children of that- I think I'd vote for not.) Note that we're already not in complete alignment at the top level- NIF has "Job Resource". I look forward to discussion with the group. - grant prep - business development - industry partnership - toxicology - funding discovery - legal counsel - intellectual property - IRB - community outreach - finance - regulatory compliance - minority health - study design - clinical trials - basic research - Informatics - Biostatistics - epidemiology - development

Personal Communication
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to a communication between an agent and one or more specific recipients.,

Pharmacokinetics Pharmacodynamics Expertise
type: Class
subclass of: People Resource
Definition: A resource or expertise relating to pharmacokinetics (http://en.wikipedia.org/wiki/Pharmacokinetics) and pharmacodynamics (http://en.wikipedia.org/wiki/Pharmacodynamics)
editorial note: pending final vetting: refine definition

Phenotype Management
type: Class
subclass of: Data Analysis Software
Definition: Resource that provides access to applications, libraries, or software that perform inference and information retrieval on biological phenotype data.
editorial note: pending final vetting: review location in hierarchy

Phenotypic Measurement
type: Class
subclass of: Molecular and Cellular Data
Definition: A resource that provides data related to any kind of measurement designed to describe an observable characteristic or trait.

Phlebotomy Facility
type: Class
subclass of: Tissue Organ Facility
Definition: A facility or core devoted to the act or practice of opening a vein by incision or puncture to remove blood.

Physico-Chemical Model
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that calculate solutions to physiological processes that involve chemical kinetics, compartments, or stochastic interactions.

Physiology Facility
type: Class
subclass of: Facility Core
Definition: A facility or core devoted to physiology (http://en.wikipedia.org/wiki/Physiology)
editorial note: pending final vetting: Refine definition

Physioloigcal Model
type: Class
subclass of: Physico-Chemical Model
Definition: Resource that provides access to software, applications, or toolkits that can be used model physiology.

Pipeline Manager
type: Class
subclass of: Integration and Interoperability Tool
Definition: Resource that provides access to software, applications, or toolkits that manage software pipelines

Portal
type: Class
subclass of: Communication and Collaborative Work
subclass of: Information Resource
subclass of: Integration and Interoperability Tool
Definition: A Resource that provides a point of access to information on the World Wide Web, presenting information from diverse sources in a unified way.
editorial note: pending final vetting: review NIF hierarchy for source of children terms.

Portlet Component
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software portlet.
deprecated: true
replacedBy: Portal
type: NamedIndividual

Power Conditioning Unit
type: Class
subclass of: Instrument
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Pre-Processing
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that perform image pre-processing routines that are required as preliminary steps before standard image processing, analysis and visualization take place.

Prediction of Side-Chain Conformations
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that can be used to calculate the estimate of side chains of conformations in biomolecular configurations.

Pressure Regulator
type: Class
subclass of: Instrument
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Private Funding Resource
type: Class
subclass of: Funding Resource
Definition: A funding resource where money is supplied by a non governmental organization, foundation, or company.

Processing Pipeline
type: Class
subclass of: Pipeline Manager
Definition: Resource that provides access to software, applications, or toolkits that enable execution processing.

Programmatic Access
type: Class
subclass of: Ontology Development and Management
editorial note: pending final vetting: propose to deprecate, but replacement term needed since this term is used in annotation

Protein-Protein Interaction
type: Class
subclass of: Interaction Network
Definition: A resource that provides a description of the interaction network of proteins.

Protein Expression
type: Class
subclass of: Molecular and Cellular Data
Definition: A resource that provides data related to the presence and abundance of proteins from a cell or tissue sample.

Protein Interaction Modeling
type: Class
subclass of: Interaction Modeling
Definition: Resource that provides access to software, applications, or toolkits that can be used to model protein interactions.

Protein Model
type: Class
subclass of: Molecular Model
Definition: Resource that provides access to software, applications, or toolkits that can be used to specifically model protein structure and function.

Proteomics Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to proteomics (http://en.wikipedia.org/wiki/Proteomics)
editorial note: pending final vetting: Refine definition

Protocol Development Expertise
type: Class
subclass of: People Resource
Definition: A resource or expertise in research (http://en.wikipedia.org/wiki/Protocol_(natural_sciences)) or clinical-trial protocol (http://en.wikipedia.org/wiki/Clinical_trial_protocol)
editorial note: pending final vetting: refine definition

Provenance
type: Class
subclass of: Provenance and Intellectual Property
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Resource
type: NamedIndividual

Provenance and Intellectual Property
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Resource
type: NamedIndividual

Psychometrics Expertise
type: Class
subclass of: People Resource
Definition: A resource or expertise relating to psychometrics (http://en.wikipedia.org/wiki/Psychometrics)
editorial note: pending final vetting: refine definition

Publication
type: Class
subclass of: Deprecated Resource
Definition: A document that is publicly available.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Bibliographic Resource
type: NamedIndividual

RDF Data
type: Class
subclass of: Structured File
Definition: A resource that provides access to structured data that is formatted according to the Resource Description Framework, a language for representing information about resources in the World Wide Web.

RNA Model
type: Class
subclass of: Molecular Model
Definition: Resource that provides access to software, applications, or toolkits that can be used to specifically model RNA structure and function.,

Rack
type: Class
subclass of: Instrument
Definition: An instrument to place and store other instruments.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Radioisotopes Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to radioisotopes or radionuclides (http://en.wikipedia.org/wiki/Radioisotopes)
editorial note: pending final vetting: Refine definition

Random Number Simulation
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that can be used perform simulations using sampling and re-sampling methods for random events.

Reagent Manufacture
type: Class
subclass of: Material Service
Definition: A resource that manufactures a product that could have a role as reagent. Examples include producing antibodies to a particular antigen (Charles River custom antibody service) or designing drugs which fit a receptor.

Reagent Resource
type: Class
subclass of: Material Resource
Definition: A material resource that provides access to reagents, such as antibodies or drugs. Included in this definition are sites designed to work with individual service providers of reagents such as ExactAntigen who do not sell antibodies directly, but provide a catalog with pricing information for most commercial and noncommercial antibody providers. Note, reagents may be of organismal origin or not, but must be classified as macromolecules or molecules.

Registration
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that performs methods for co-registration, alignment and warping of imaging and hyper-imaging data.

Regularization and Smoothing
type: Class
subclass of: Signal Processing
Definition: Resource that provides access to software, applications, or toolkits that smooths time series data.

Regulatory Compliance Resource
type: Class
subclass of: Service Resource
Definition: A resource that provides guidance related to ethical or legal matters concerning scientific research. These resources provide both information regarding ethical/legal research matters as well as methods for developing, applying, assessing and reviewing regulations (i.e. compliance documents, procedures, consent forms, etc). These resources can include both materials and documentation along with expertise in the form of personnel.

Regulatory Policy Resource
type: Class
subclass of: Regulatory Compliance Resource
Definition: A resource that provides guidelines for complying with federal, state, and local regulations (e.g. research integrity office, research policy office, etc). The resource can provide seminars, documents, and other items regarding regulations.

Regulatory Signaling Network Reconstruction
type: Class
subclass of: Genomic Phenotypic Analysis
Definition: PML Resource that provides access to tools or functions that generate network maps of biological signaling or regulatory networks based on applying logic and statistics to observations/hypothesis.

Relational Database
type: Class
subclass of: Database
Definition: A resource that provides access to a database that comprises a normalized data set constructed according to a specific entity-relation data model.

Report
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to documents describing an account, event, situation, or the like, usually as the result of observation, inquiry, etc.

Research Animals Facility
type: Class
subclass of: Facility Core
Definition: A facility or core devoted to research animals (http://en.wikipedia.org/wiki/Animal_testing)
editorial note: pending final vetting: Refine definition

Research Supplies
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
Definition: Material supplies provided for research (http://en.wikipedia.org/wiki/Research) purposes
deprecated: true
replacedBy: Resource
type: NamedIndividual

Resource
type: Class
Definition: An entity that provides access (either in the open community or within an organization) to material, intellectual, financial, technological, or electronic means of carrying out research and development.

Resource Integration Component
type: Class
subclass of: Integration
Definition: Resource that provides access to software, application, or toolkit that enable integration of diverse resources.

Robotic Arrayer
type: Class
subclass of: Instrument
Definition: An automated mechanical machine for creating microarrays
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Root Finder
type: Class
subclass of: Numerical Method
Definition: A resource that provides access to a tool or function that finds a value x such that f(x) = 0, for a given function f. Such an x is called a root of the function f.

Scalar Data
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Discrete data that is composed of individual data points as compared to.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Scripting Language and Environment
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Integration and Interoperability Tool
type: NamedIndividual

Searching Sorting and Indexing
type: Class
subclass of: Algorithm
Definition: Resource that provides access to software, applications, or toolkits that search, sort, or index on binary or textual formatted data.

Segmentation
type: Class
subclass of: Image Processing
Definition: Resource that provides access to software, applications, or toolkits that classify sub-regions of images.

Semantic Network
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Knowledgebase
type: NamedIndividual

Semi-Structured Knowledge Resource
type: Class
subclass of: Information Resource
Definition: A resource that provides data that is partially structured.

Seminar Series
type: Class
subclass of: Training Resource
Definition: A resource that provides presentations from experts within their field.

Sentence Splitting
type: Class
subclass of: Parsing
Definition: Resource that provides access to applications, libraries, or software that divide sentences into components or fragments.

Sequence Alignment
type: Class
subclass of: Searching Sorting and Indexing
Definition: Resource that provides access to software, applications, or toolkits that compare two or more genomic sequences and provides summary information.

Sequence Annotation
type: Class
subclass of: Genomic Phenotypic Analysis
Definition: Resource that provides access to tools or functions that provide information beyond biological sequence, e.g., function.

Sequence Similarity Searching
type: Class
subclass of: Genomic Phenotypic Analysis
Definition: Resource that provides access to tools or functions that perform similarity searching involving biological sequences.

Sequence Visualization
type: Class
subclass of: Visualization
Definition: Resource that provides access to molecular sequence viewers.

Server
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides any combination of hardware or software designed to provide services to clients as defined in http://en.wikipedia.org/wiki/Server_(computing)
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Computational Service
type: NamedIndividual

Service Resource
type: Class
subclass of: Resource
Definition: A resource that provides an act of helpful activity, consisting of an organized system of apparatus, appliances, technology, personnel, etc.
comment: As per alignment with NIF resource type hierarchy.

Shape Analysis
type: Class
subclass of: Computational Geometry
Definition: Resource that provides access to tools representation, modeling, analysis and visualization of biological shape out of data.

Signal Processing
type: Class
subclass of: Data Analysis Software
subclass of: Statistical Analysis
Definition: Resource that provides access to software, applications, or toolkits that analysis multi-dimensional spatio-temporal data.

Signaling Network Reconstruction
type: Class
subclass of: Genomic Phenotypic Analysis
subclass of: Inference From Data
Definition: Resource that provides access to software, applications, or toolkits that generate network maps of biological signaling networks based on applying logic and statistics to observations/hypothesis.

Skull Stripping
type: Class
subclass of: Pre-Processing
Definition: Resource that provides access to software, applications, or toolkits that methods for removing of segments from images, which have no valuable information about the biological object. For example, removing non-brain tissue from whole-brain MRI scans, for the purpose of doing quantitative evaluations of time or space changing brain anatomy.

Software
type: Class
subclass of: Resource
comment: As per alignment with NIF resource type hierarchy.
Definition: Resource that provides access usually through repositories or the Internet to computer executables, libraries, plugins, or source code.

Software Development Environment
type: Class
subclass of: Software Development Tool
Definition: A resource that provides the entire environment (applications, servers, network) that provides comprehensive facilities to computer programmers for software development. An SDE typically includes an integrated development environment (IDE, comprising source code editor, compiler, build automation, debugger), requirement management tools, design modeling tools, documentation generation tools, code analysis tools, and so on.

Software Development Resource
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to software, application, or toolkit that enable interactive tools for generating a computer program.

Software Development Tool
type: Class
subclass of: Software Development Resource
Definition: Resource that provides access to software, application, or toolkit that enable generic tools for software development, engineering and deployment.

Software Distribution
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software distribution that access to a computer program file or collection of files.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Software Documentation
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides access to instructions regarding how software operates or how to use it.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Bibliographic Resource
type: NamedIndividual

Software Engineering Tool
type: Class
subclass of: Software Development Resource
Definition: Resource that provides access to software, application, or toolkit that enables professional software engineering processes.

Software Technology Protocol
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to information on how to implement and use a computer program.

Software development
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Software Development
replacedBy: Software Development Resource
type: NamedIndividual

Source Code
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to information content entity that specifies, using a programming language, some algorithm.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Source Control
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to software, application, or toolkit that enable software source control methods.

Spectral Transform
type: Class
subclass of: Data Transform
Definition: Resource that provides access to software, applications, or toolkits that perform spatial and frequency-type data transformations.

Standalone Application
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software distribution that does not have any dependencies. Software distributed in this manner can be run on a desktop computer.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Standard Specification
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to a generally agreed upon set of rules for representation.

State Funding Resource
type: Class
subclass of: Funding Resource
Definition: A funding resource that is provided by a state.

Statistical Algorithm
type: Class
subclass of: Algorithm
Definition: Resource that provides access to tools or functions that calculate basic methods of statistics and biometrics.

Statistical Analysis
type: Class
subclass of: Data Analysis Software
Definition: A resource that provides access to software, applications, or toolkits for basic statistical modeling and analysis.

Statistical Package
type: Class
subclass of: Statistical Analysis
Definition: A resource that provides access to self-contained tools, resources and packages for statistical modeling and data analysis (e.g., R, SOCR, SAS, SPSS, SYSTAT, etc.).

Statistical Text Analysis
type: Class
subclass of: Text Mining
Definition: Resource that provides access to software, applications, or toolkits that performs statistical tests on text corpora.

Stem Cell Therapy Facility
type: Class
subclass of: Cell Biology Facility
Definition: A facility that provides resources for the development and growth of self-renewing cells that are capable of differentiation into a diverse range of specialized cells.

Stimulator
type: Class
subclass of: Instrument
Definition: A neurosurgical device that supplies a controlled alternating-current voltage to two electrodes that are applied to a patient.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Stochastic Data
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Structural Model
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that can be used to model based on a coordinate-based mathematical description of a collection of biological structures.

Structure-Based Protein Classification
type: Class
subclass of: Molecular Modeling and Classification
Definition: Resource that provides access to software, applications, or toolkits that can be used to classify protein shape and parameters.

Structured Data
type: Class
subclass of: Deprecated Resource
Definition: A resource that distributes data that is organized in a purposeful manner
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Structured File
type: NamedIndividual

Structured File
type: Class
subclass of: Structured Knowledge Resource
Definition: A resource that provides access to an electronic document having and manifesting a clearly defined structure or organization that allows it to be executed.

Structured Knowledge Resource
type: Class
subclass of: Information Resource
Definition: A resource that provides access to collection of data records arranged according to some semantic framework. The semantic framework may be minimally expressive - such as a simple controlled vocabulary - or highly expressive such as a formally structured ontology. Such resources may include only a representation of universal/classes/categories or may be linked to individual instance data typed according to a set of asserted classes (i.e., a knowledgebase).

Summarization
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to applications, libraries, or software that creates a shortened version of text.
deprecated: true
replacedBy: Language Summarization
type: NamedIndividual

Support
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides aid or assistance with a technology product.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Technical Support
type: NamedIndividual

Symbolic and Analytic Model
type: Class
subclass of: Algorithm
Definition: Resource that provides access to methods of analysis and modeling that have closed-form analytical mathematical representations.

Technical Support
type: Class
subclass of: People Resource
subclass of: Service Resource
Definition: A resource that provides aid or assistance with a technology product.
editorial note: pending final vetting: refine definition

Temperature Control Unit
type: Class
subclass of: Instrument
Definition: An instrument to heat or cool an environment.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Testing Tools
type: Class
subclass of: Software Development Tool
Definition: Resource that provides access to a software development tool to perform quality assurance of software.

Text Mining
type: Class
subclass of: Data Mining and Inference
subclass of: Natural Language Processing
Definition: Resource that provides access to software, applications, or toolkits that derives information from free text.

Thesis
type: Class
subclass of: Narrative Resource
Definition: A resource that provides access to a document created to summarize research findings associated with the completion of an academic degree.

Three D Image
type: Class
subclass of: Image
Definition: A resource that provides image data consisting of length, width and depth.

Three Dimensional Data
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Discrete data that consists of x, y, and z coordinates.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Time Series Analysis
type: Class
subclass of: Signal Processing
Definition: Resource that provides access to software, applications, or toolkits that includes methods for analyzing time series data in order to extract meaningful statistics and other characteristics of the data.

Tissue Organ Facility
type: Class
subclass of: Facility Core
Definition: A facility that provides resources relating to tissues used in biomedical research.

Toolkit
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software, applications, or toolkits that deliver software or application in toolkit fashion, whereby the kit components can be used independently of each other, or included as part of another program
deprecated: true
replacedBy: Integration and Interoperability Tool
type: NamedIndividual

Toxicology Expertise
type: Class
subclass of: People Resource
Definition: A resource or expertise relating to (http://en.wikipedia.org/wiki/Toxicology)
editorial note: pending final vetting: refine definition

Training Resource
type: Class
subclass of: Resource
Definition: A resource that provides access to educational materials or events, such as courses, workshops or graduate programs.
comment: As per alignment with NIF resource type hierarchy.

Training Service
type: Class
subclass of: Service Resource
Definition: A resource that provides training to people.
editorial note: pending final vetting: review location in hierarchy

Tutorial
type: Class
subclass of: Education
Definition: An educational resource that is interactive and teaches by example.

Tutorials
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Tutorial
type: NamedIndividual

Two D Image
type: Class
subclass of: Image
Definition: A resource that provides image data consisting of length and width, but no depth.

Unstructured Data
type: Class
subclass of: Deprecated Resource
Definition: Data distribution that does not have a data model or has one that is not easily usable by a computer program.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Unstructured Knowledge Resource
type: NamedIndividual

Unstructured Knowledge Resource
type: Class
subclass of: Information Resource
Definition: A resource that provides access to collection of data or information that is not easily queryable without using metadata about the resource.
editorial note: Suggested child terms: audio track, slide, and video per NIF. Work with NIF to generate definitions.

Vector Data
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
Definition: Discrete data that representents physical entities as XY coordinates.
deprecated: true
replacedBy: Data Resource
type: NamedIndividual

Version Source Control System
type: Class
subclass of: Software Development Tool
Definition: A resource that provides a system for the management of multiple revisions of the same unit of information. It is most commonly used in engineering and software development to manage ongoing development of digital documents like application source code, art resources such as blueprints or electronic models, and other projects that may be worked on by a team of people.

Vibration Isolation Table
type: Class
subclass of: Instrument
Definition: An table that provides a workspace insulated from vibration.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Vibrotome
type: Class
subclass of: Instrument
Definition: An instrument for sectioning tissue samples that uses a vibrating razor blade to cut the sample.
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO

Visualization
type: Class
subclass of: Interactive Tool
Definition: Resource that provides access to tools for graphical, interactive, multimodal and multidimensional data and result visualization.

Volume Model Scene Data
type: Class
subclass of: Computational Model
editorial note: pending final vetting: provide definition

Wavelet Model
type: Class
subclass of: Modeling and Simulation
Definition: Resource that provides access to software, applications, or toolkits that can be used model a system using or described by wavelets.

Wavelet Transform
type: Class
subclass of: Spectral Transform
Definition: Resource that provides access to software, applications, or toolkits that performs multi-dimensional wavelet transform.

Web Access
type: Class
subclass of: Ontology Development and Management
Definition: Resource that provides access to an ontology development and management tool that can be accessed via the Web.

Web Posting
type: Class
subclass of: Dissemination Vehicle
Definition: Resources that are disseminated on the Internet via HTTP, FTP and other web protocols.

Web Service
type: Class
subclass of: Deprecated Resource
Definition: A resource that provides a software system designed to support interoperable machine-to-machine interaction over a network. Web services are frequently Web APIs that can be accessed over a network, such as the Internet, and executed on a remote system hosting the requested services.
history note: Deprecated for BRO v3.0
deprecated: true
replacedBy: Computational Service
type: NamedIndividual

Website
type: Class
subclass of: Narrative Resource
history note: Deprecated for BRO v3.0
Definition: Resource that provides access to software, application, or toolkit that can develop access to a connected group of pages on the World Wide Web regarded as a single entity, usually maintained by one person or organization and devoted to a single topic or several closely related topics.

Website Hosting
type: Class
subclass of: Hosting
Definition: A resource that provides space for and access to a web server and content.

White Paper
type: Class
subclass of: Narrative Resource
Definition: A publication that is an authoritative report or guide that often addresses issues and how to solve them.

Workbench
type: Class
subclass of: Integration and Interoperability Tool
subclass of: Interactive Tool
Definition: Resource that provides access to software, applications, or toolkits that can be used to build or manage frameworks that provides sets of interoperable software tools.

X-Ray Crystallography Facility
type: Class
subclass of: Molecular Biology Facility
Definition: A molecular biology facility devoted to x-ray crystallography (http://en.wikipedia.org/wiki/X-ray_crystallography)
editorial note: pending final vetting: Refine definition

XML Data
type: Class
subclass of: Structured File
Definition: A resource that provides access to structured data that is in XML, a self-descriptive format to store and transport data.

XML Database
type: Class
subclass of: Object Database
Definition: A resource that provides access to a database that stores XML.

physico chemical models
type: Class
subclass of: Deprecated Resource
history note: Deprecated for BRO v2.7
deprecated: true
replacedBy: Physico-Chemical Model
type: NamedIndividual

Area of Research
type: Class
Definition: Area of research that may be related to a BRO:Resource.

Behavioral Science
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Behavioral_science

Bioinformatics
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Bioinformatics

Biostatistics
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Biostatistics

Clinical Studies
type: Class
subclass of: Area of Research
Definition: or resources that help investigators do clinical studies or trials, including, epidemiology (http://en.wikipedia.org/wiki/Epidemiology), outcome development, physiological human studies, interventional trials, etc

Computational Biology
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Computational_biology

Deprecated Area of Research
type: Class
Definition: Former subclasses of area:Area_of_Research that have been deprecated and their usage is not recommended.
deprecated: true

Epidemiology
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Epidemiolgy

Genomics
type: Class
subclass of: Area of Research
Definition: The study of all the genes of a cell, tissue, or organism at the DNA (genotype) or mRNA (transcriptome) levels.

Metabolomics
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Metabolomics

Nursing
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Nursing

Outcomes Research
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Outcomes_research

Pathology
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Pathology

Pediatrics
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Pediatrics

Pharmacokinetics Pharmacodynamics
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Pharmacokinetics and http://en.wikipedia.org/wiki/Pharmacodynamics

Physiology
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Physiology

Preclinical
type: Class
subclass of: Area of Research
Definition: The stages of biomedical research which take place in model organisms and cell lines, prior to first-in-human application of a diagnostic or therapeutic intervention.

Proteomics
type: Class
subclass of: Area of Research
Definition: The large-scale study of proteins

Psychometrics
type: Class
subclass of: Area of Research
Definition: As defined in http://en.wikipedia.org/wiki/Psychometrics

Research IT
type: Class
subclass of: Area of Research
Definition: Framework solutions that enable scientists to work smarter and ultimately increase the number of scientific discoveries made, as well as decrease the time to publish results. (http://en.wikipedia.org/wiki/Information_technology)

Toxicology
type: Class
subclass of: Area of Research
Definition: defined in http://en.wikipedia.org/wiki/Toxicology

Biositemaps Information Model
type: Class
has db xref: hasDbXref0000000

Resource Description
type: Class
subclass of: Biositemaps Information Model

Version Information
type: Class
subclass of: Biositemaps Information Model

Thing
version info: TODO:

Concept
cui: X123456
has STY: http://bioportal.bioontology.org/ontologies/umls/sty/T028

Environmental Health and Safety Resource