BiomedicalResources.owl
type: Ontology
imports: core
version info: 3.2.1

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.

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

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.

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.

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.

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

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

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

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

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

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

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.

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

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.

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

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

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

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.

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

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

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

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

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

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.

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.,

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.

Book
type: Class
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.
subclass of: Narrative Resource

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

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.

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

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

Pre-Processing
type: Class
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.
subclass of: Image Processing

Averaging and Aglomeration
type: Class
replacedBy: Averaging and Agglomeration
history note: Deprecated for BRO v3.0
subclass of: Deprecated Resource
type: DeprecatedClass
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 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.

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

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

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

Flow Cytometry Cell Sorting Facility
type: Class
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
subclass of: Cell Biology Facility

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

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

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.

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.

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.

Structured File
type: Class
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.
subclass of: Structured Knowledge Resource

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

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

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

PDE Solver
type: Class
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.
subclass of: Numerical Method

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/).

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.

Exercise Study Facility
type: Class
Definition: A facility or core that provides services and equipment related to exercise physiology.
subclass of: Physiology Facility

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

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.

Data Mining and Inference
type: Class
editorial note: pending final vetting: review location in hierarchy and child terms
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.

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.

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

Instrument
type: Class
subclass of: Material Resource
editorial note: pending final vetting: review scope of BRO for child terms
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

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

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

Database
type: Class
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
subclass of: Structured Knowledge Resource

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).

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.

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

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.

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

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

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.

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

Training Resource
type: Class
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.
subclass of: Resource

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.

Modeling and Simulation
type: Class
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.
subclass of: Software

Version Information
type: Class
subclass of: Biositemaps Information Model

Biositemaps Information Model
type: Class

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.

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

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

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

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

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

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.

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.

Vibration Isolation Table
type: Class
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
subclass of: Instrument

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

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

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.

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

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

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

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

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

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

Signaling Network Reconstruction
type: Class
subclass of: Inference From Data
subclass of: Genomic Phenotypic Analysis
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.

Inference From Data
type: Class
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.
subclass of: Data Mining and Inference

Genomic Phenotypic Analysis
type: Class
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.
subclass of: Data Analysis Software

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

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

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

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

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.

Knowledgebase
type: Class
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.
subclass of: Structured Knowledge Resource

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

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

MRI Scanner
type: Class
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
subclass of: Medical Device
subclass of: Instrument

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

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.

Algorithm
type: Class
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.
subclass of: Software

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

Reagent Resource
type: Class
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.
subclass of: Material Resource

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.

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.

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

Data Analysis Software
type: Class
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.
subclass of: Software

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.

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

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

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

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

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

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

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

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

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

Funding Resource
type: Class
Definition: A resource that provides monetary support in the form of grants, contracts, or gifts for research, training, or education.
editorial note: pending final vetting: are more subclasses needed, e.g. Foreign_Funding_Resource and Local_Funding_Resource
subclass of: Resource
comment: As per alignment with NIF resource type hierarchy.

Clinical Trial Data
type: Class
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
subclass of: Deprecated Resource
replacedBy: Clinical Research Data
type: DeprecatedClass

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

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

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

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.

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

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

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

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

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

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

People Resource
type: Class
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.
subclass of: Resource
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

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.

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

Material Service
type: Class
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.
subclass of: Service Resource

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.

Microtome
type: Class
Definition: An instrument used to cut very fine sections of material.
subclass of: Instrument
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).

Regulatory Compliance Resource
type: Class
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.
subclass of: Service Resource

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

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

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.

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

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.

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

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

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.

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

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

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

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

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.

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.

Data Storage Service
type: Class
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.
subclass of: Service Resource

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.

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

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

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

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

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

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

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.

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.

Resource Description
type: Class
subclass of: Biositemaps Information Model

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

Research IT
type: Class
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)
subclass of: Area of Research

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

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.

Document Retrieval
type: Class
editorial note: pending final vetting: review location in hierarchy
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.

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

Interaction Modeling
type: Class
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.
subclass of: Modeling and Simulation

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

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

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

Human Studies Compliance Resource
type: Class
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.
subclass of: Regulatory Compliance Resource

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

Data Computation Service
type: Class
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.
subclass of: Computational Service

Image Reconstruction
type: Class
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.
subclass of: Image Algorithm

Image Algorithm
type: Class
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.
subclass of: Algorithm

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

Clinical Studies
type: Class
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
subclass of: Area of Research

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.

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

PET Scanner
type: Class
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
subclass of: Medical Device
subclass of: Instrument

Reagent Manufacture
type: Class
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.
subclass of: Material Service

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.

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

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.

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.

Amplifier
type: Class
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
subclass of: Instrument

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

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.

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

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

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

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

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

Immune Monitoring Facility
type: Class
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.
subclass of: Cell Biology Facility

Software Development Environment
type: Class
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.
subclass of: Software Development Tool

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.

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.

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

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 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.

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.

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.

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

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.

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

Ontology
type: Class
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.
subclass of: Structured Knowledge Resource

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

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

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

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

Homology Modeling
type: Class
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.
subclass of: Molecular Modeling and Classification

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.

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

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.

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

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

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

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

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

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

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.

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

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

Electrode Holder
type: Class
editorial note: pending final vetting: work with eagle-i to define terms since out of scope of BRO
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.

Communication and Collaborative Work
type: Class
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.
subclass of: Interactive Tool

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

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

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

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

Molecular Dynamics
type: Class
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.
subclass of: Molecular Modeling and Classification

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.

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

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

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.)

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.

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.

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.

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

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.

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

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

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

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.

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

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

Graphical Processing Workflow Environments
type: Class
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
subclass of: Pipeline Manager

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

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.

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.

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)

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.

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

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

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.

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

CT Scanner
type: Class
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
subclass of: Medical Device
subclass of: Instrument

Biomaterial Supply Resource
type: Class
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).
subclass of: Material Resource

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

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

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

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

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

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.

Temperature Control Unit
type: Class
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
subclass of: Instrument

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

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

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

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

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

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

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

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

Portal
type: Class
subclass of: Information Resource
subclass of: Integration and Interoperability Tool
subclass of: Communication and Collaborative Work
editorial note: pending final vetting: review NIF hierarchy for source of children terms.
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.

Integration and Interoperability Tool
type: Class
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.
subclass of: Software

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

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.

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

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.

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

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.

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.

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

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

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

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

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

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

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.

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

Centrality Analsysis
type: Class
replacedBy: Centrality Analysis
type: DeprecatedClass
history note: Deprecated for BRO v3.0
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.

Centrality Analysis
type: Class
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.
subclass of: Graph Algorithm

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

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.

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.,

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

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.

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

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

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

Convolution
type: Class
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.
subclass of: Image Algorithm
subclass of: Numerical Method

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

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.

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

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

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.

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

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.

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

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

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.

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

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

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.

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

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.

Unstructured Knowledge Resource
type: Class
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.
subclass of: Information Resource

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

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

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

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

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

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

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.

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

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

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.

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

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.

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

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.

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.

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.

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

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.

Structural Model
type: Class
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.
subclass of: Modeling and Simulation

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

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

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

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.

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

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

Feature Request
type: Class
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.
subclass of: Interactive Web-Based Tool

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

Random Number Simulation
type: Class
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.
subclass of: Modeling and Simulation

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

Software Development
type: Class
subclass of: Activity

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

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

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

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

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.

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.

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

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

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.

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

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

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

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.

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

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

Delimited Table
type: Class
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.
subclass of: Structured File

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

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

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

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

Model with Closed Form Solutions
type: Class
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
subclass of: Modeling and Simulation
subclass of: Symbolic and Analytic Model

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.

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.

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

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.

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

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

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.

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.

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.

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

Skull Stripping
type: Class
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.
subclass of: Pre-Processing

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

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

Biomaterial Manufacture
type: Class
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.
subclass of: Material Service

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

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.

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

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

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.

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

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.

Sleep Study Facility
type: Class
subclass of: Physiology Facility
Definition: A facility or core that provides services for research on sleep problems.

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

Contact Modeling
type: Class
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.
subclass of: Mechanical Simulation

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

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

Behavioral Analysis Service
type: Class
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.
subclass of: Computational Service
editorial note: pending final vetting: review hierarchy location

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.

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.

Version Source Control System
type: Class
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.
subclass of: Software Development Tool

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

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

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

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

version information
type: ObjectProperty
range: Version Information
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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Other Information
type: DatatypeProperty
domain: Algorithm
label: Other_Information

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

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

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

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

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

publication identifier
type: DatatypeProperty
Definition: Publication identifier for the resource from a publicly available publication database (e.g. PMID: 19483092 or doi: 10.1093/nar/gkp440).
range: string
domain: Resource Description

documentation URL
type: DatatypeProperty
type: DeprecatedProperty
range: string

Implementation_Language
type: DatatypeProperty
preferred label: Implementation Language

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

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

mailing list URL
type: DatatypeProperty
range: string
type: DeprecatedProperty

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

Research Program
type: DatatypeProperty
domain: Resource Description
range: string
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

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

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

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

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

TranscriptType
type: DatatypeProperty
comment: Type of biological transcript

version
type: DatatypeProperty
domain: Version Information
Definition: The version number
label: Version number
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

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

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

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

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

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

Target_User_Type
type: DatatypeProperty
preferred label: Target User Type

Identifier
type: DatatypeProperty
comment: Any kind of identifier

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

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

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

Expertise
type: DeprecatedClass
replacedBy: Resource
history note: Deprecated for BRO v2.7
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.
type: Class

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

Backup Archives and Disaster Recovery
type: DeprecatedClass
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,
type: Class
subclass of: Deprecated Resource
replacedBy: Backup Archive Service
replacedBy: Disaster Recovery Service
history note: Deprecated for BRO v3.0

Biochemical Supply Resource
type: DeprecatedClass
replacedBy: Reagent Resource
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
type: Class

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

Binary Executable
type: DeprecatedClass
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.
type: Class
subclass of: Deprecated Resource
replacedBy: Data Resource
history note: Deprecated for BRO v3.0

Continuous Data
type: DeprecatedClass
type: Class
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
replacedBy: Data Resource
subclass of: Deprecated Resource

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

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

Software Documentation
type: DeprecatedClass
type: Class
replacedBy: Bibliographic Resource
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

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

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

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

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

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

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

Toolkit
type: DeprecatedClass
replacedBy: Integration and Interoperability Tool
type: Class
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
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0

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

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

Deprecated Data Resource
type: DeprecatedClass
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.
type: Class

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

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

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

replacedBy
type: AnnotationProperty
domain: DeprecatedClass
type: ObjectProperty

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

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

Pass Through License
type: DeprecatedClass
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
subclass of: Deprecated Resource
replacedBy: License
type: Class

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

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

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

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

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

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

Server
type: DeprecatedClass
replacedBy: Computational Service
history note: Deprecated for BRO v3.0
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)
type: Class
subclass of: Deprecated Resource

Standalone Application
type: DeprecatedClass
subclass of: Deprecated Resource
history note: Deprecated for BRO v3.0
type: Class
replacedBy: Data Resource
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.

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

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

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

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

Matrix
type: DeprecatedClass
replacedBy: Data Resource
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.
history note: Deprecated for BRO v3.0
type: Class
subclass of: Deprecated Resource

byline
type: DeprecatedProperty
range: string
type: DatatypeProperty

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

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

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

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

Environmental Health and Safety Resource

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

Web Service
type: DeprecatedClass
history note: Deprecated for BRO v3.0
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.
replacedBy: Computational Service
type: Class
subclass of: Deprecated Resource

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

Data Repository
type: DeprecatedClass
history note: Deprecated for BRO v3.0
replacedBy: Database
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.
subclass of: Deprecated Resource
type: Class

Data Object
type: DeprecatedClass
replacedBy: Data Resource
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
type: Class

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

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

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

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

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

Thing
version info: TODO:

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

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