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http://purl.bioontology.org/ontology/PSIMOD

Ontology consisting of terms that describe protein chemical modifications, logically linked by an is_a relationship in such a way as to form a direct acyclic graph (DAG). The PSI-MOD ontology has more than 45 top-level nodes, and provides alternative hierarchical paths for classifying protein modifications either by the molecular structure of the modification, or by the amino acid residue that is modified.

Proper citation: Protein Modification Ontology (RRID:SCR_010412) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/QUDT

Collection of ontologies that define the base classes properties, and restrictions used for modeling physical quantities, units of measure, and their dimensions in various measurement systems. The goal of the QUDT ontology is to provide a unified model of, measurable quantities, units for measuring different kinds of quantities, the numerical values of quantities in different units of measure and the data structures and data types used to store and manipulate these objects in software. This OWL schema is a foundation for a basic treatment of units.

Proper citation: QUDT (RRID:SCR_010416) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/OMIT

Ontology to establish data exchange standards and common data elements in the microRNA (miR) domain. Biologists (cell biologists in particular) and bioinformaticians can make use of OMIT to leverage emerging semantic technologies in knowledge acquisition and discovery for more effective identification of important roles performed by miRs in humans'' various diseases and biological processes (usually through miRs'' respective target genes). OMIT has reused and extended a set of well-established concepts from existing bio-ontologies, e.g., Gene Ontology, Sequence Ontology, Protein Ontology, NCBI Organism Taxonomy, Human Disease Ontology, Foundational Model of Anatomy, and so forth.

Proper citation: Ontology for MicroRNA Target Prediction (RRID:SCR_010387) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/ROLEO

Ontology in the domain of role classification that aims to standardize role classification and support computer-assisted reasoning. RoleO is a community-based ontology, and its development follows the OBO Foundry principles.

Proper citation: Role Ontology (RRID:SCR_010420) Copy   

•   Source: SciCrunch Registry

http://uberon.org

An integrated cross-species anatomy ontology representing a variety of entities classified according to traditional anatomical criteria such as structure, function and developmental lineage. The ontology includes comprehensive relationships to taxon-specific anatomical ontologies, allowing integration of functional, phenotype and expression data. Uberon consists of over 10000 classes (March 2014) representing structures that are shared across a variety of metazoans. The majority of these classes are chordate specific, and there is large bias towards model organisms and human.

Proper citation: UBERON (RRID:SCR_010668) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/EP

Ontology that contains terms describing single-channel electrophysiological experiments and data obtained using voltage-clamp, current clamp and fluorescence imaging techniques applied at the cell level and multi-channel fluorescence imaging techniques applied at the cell, tissue and whole heart levels.

Proper citation: Cardiac Electrophysiology Ontology (RRID:SCR_007065) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/GRO-CPGA

A structured controlled vocabulary for the anatomy of Gramineae. Please note that this ontology has now been superseded by the Plant Ontology, http://bioportal.bioontology.org/ontologies/1587.

Proper citation: Cereal Plant Gross Anatomy Ontology (RRID:SCR_007061) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/WB-PHENOTYPE

A structured controlled vocabulary of Caenorhabditis elegans phenotypes.

Proper citation: C. elegans Phenotype Vocabulary (RRID:SCR_006924) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/CCONT

ontology for the formal representation of cell lines and their correspnding culture conditions.

Proper citation: Cell Culture Ontology (RRID:SCR_007096) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/CCON

Ontology of Cerrado wood plant dynamics to represent the set of concepts about the dynamics, that is, changes over time of the wood vegetation structure, of Cerrado. Ccon describes the main parameters used to measure the changes, such as mortality rate and recruitment rate.

Proper citation: Cerrado concepts and plant community dynamics (RRID:SCR_007174) Copy   

•   Source: SciCrunch Registry

http://fireball.drexelmed.edu/birnlex/OWLdocs/

THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 26, 2011. Lexicon that provides entities for data and database annotation for the BIRN project, covering anatomy, disease, data collection, project management and experimental design. These sources may include complex image databases, such as data from structural and functional magnetic resonance imaging (MRI) on human subjects involved in studies on Alzheimer''s disease or schizophrenia. The BIRNLex is a specialized vocabulary utilized by BIRN scientists in the context of their research, including common terms for neuroanatomy, molecular species, subject information, behavioral and cognitive processes, experimental practice and design, and the associated elements of primary data provenance required for large-scale data integration across disparate experimental studies.The BIRNLex offers well defined terms from several domains of importance to neuroimaging across scales.

Proper citation: BIRNLex (RRID:SCR_007326) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/CNO

A controlled vocabulary of terms used in Computational Neurosciences to describe models of the nervous system. This first release of CNO is an alpha version and should be further aligned with other ontologies accessible on Bioportal and should be made compliant with the OBO foundry recommendations.

Proper citation: Computational Neuroscience Ontology (RRID:SCR_007289) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/SPTO

Ontology for Solanaceae crop phenotypes and traits, developed in collaboration with the research community, especially for breeder traits of agronomic importance.

Proper citation: Solanaceae Phenotype Ontology (RRID:SCR_007832) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/CPRO

A uniform core set of data elements (whose formal semantics are captured in OWL) for use in a Computer-Based Patient Record (CPR)

Proper citation: Computer-Based Patient Record Ontology (RRID:SCR_007540) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/SOY

Growth, trait and development ontology for soybean

Proper citation: Soy Ontology (RRID:SCR_007847) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/HCPCS

Ontology for the healthcare common procedure coding system.

Proper citation: Healthcare Common Procedure Coding System (RRID:SCR_007598) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/DIKB

An evidence taxonomy for pharmacologic studies that, when combined with a set of inclusion criteria, enable drug experts to specify what their confidence in a drug mechanism assertion would be if it were supported by a specific set of evidence.

Proper citation: Drug Interaction Knowledge Base Ontology (RRID:SCR_007591) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/CHD

An ontology that describes the Congenital Heart Defects data.

Proper citation: Congenital Heart Defects Ontology (RRID:SCR_007584) Copy   

•   Source: SciCrunch Registry

http://purl.bioontology.org/ontology/SSE

Memorial Sloan-Kettering Cancer Center''s ontology of surgical secondary events (adverse events).

Proper citation: Surgical Secondary Events (RRID:SCR_007894) Copy   

•   Source: SciCrunch Registry

https://github.com/obophenotype/porifera-ontology

An ontology covering the anatomy of Porifera (sponges).

Proper citation: Porifera Ontology (RRID:SCR_000134) Copy   

•   Source: SciCrunch Registry