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

An application ontology for the domain of gene expression. The ontology integrates fragments of GO and MI with data from GOA, IntAct, UniProt, NCBI, KEGG and orthology relations.

Proper citation: Gene Expression Ontology (RRID:SCR_010326) Copy   

•   Source: SciCrunch Registry
  

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

Ontology that enables automated interaction with more complex Web services that are typical for example within life sciences. WSIO is however independent of the application domain and relevant for both SOAP and REST Web services, and for batch execution engines in general. If the interaction scenario with a Web service is nontrivial (and incorporates session handling), annotation with WSIO concepts will enable automatic generation of client programs, scripts, or interactive applications with a graphical user interface. WSIO also enables automation of different ways of data transfer and data un-/compression or en-/decoding. They strongly discourage providers from developing complex interaction and data-transfer/compression scenarios, however when needed, WSIO may enable smooth automated interaction with them. Future versions will support more interaction scenarios. WSIO aims to serve also as a means to standardise the complex interaction scenarios primarily within both SOAP and REST Web services, and secondarily to apply also to batch execution infrastructure in general.

Proper citation: Web-Service Interaction Ontology (RRID:SCR_010448) Copy   

•   Source: SciCrunch Registry
  

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

A top-level ontology integrating objects and processes.

Proper citation: General Formal Ontology (RRID:SCR_010328) Copy   

•   Source: SciCrunch Registry
  

http://purl.bioontology.org/ontology/CO-WHEAT

Ontology that defines traits of the International Wheat Information System (IWIS) database and wheat descriptor.

Proper citation: Wheat Trait Ontology (RRID:SCR_010449) Copy   

•   Source: SciCrunch Registry
  

http://purl.bioontology.org/ontology/GFO-BIO

A biological core ontology built on the General Formal Ontology.

Proper citation: General Formal Ontology for Biology (RRID:SCR_010329) Copy   

•   Source: SciCrunch Registry
  

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

Ontology to help plant scientists in documenting and sharing metadata describing the abiotic environment.

Proper citation: XEML Environment Ontology (RRID:SCR_010450) Copy   

•   Source: SciCrunch Registry
  

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

Ontology to define the abstract division of the total genetic information of an organism by its physical separation into different components, thereby providing a high level reference point to which more specific descriptions of the characteristics of these components can be linked.

Proper citation: Genome Component Ontology (RRID:SCR_010330) Copy   

•   Source: SciCrunch Registry
  

http://www.biodatomics.com/

An open source commercial platform for genomic analysis. Included is a home brewed workflow engine and code provenance tracking, no data provenance tracking. Multiple tools like HMMR and Blast are included in the platform with an architecture that allows others to be plugged in and the code to be modified. Data storage is handled by hadoop clusters.

Proper citation: Biodatomics (RRID:SCR_010464) Copy   

•   Source: SciCrunch Registry
  

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

A core ontology consistent with a metamodel (disorders and groups of disorders, genes, clinical signs and their relations) and an instantiation of this metamodel with Orphanet Data (available on http://orphadata.org). Research experiments demonstrated (i) efficient classifications generation based on SPARQL Construct, (ii) perspectives in semantic audit of a knowledge base, (iii) semantic comparison with OMIM (www.omim.org) using proximity measurements and (iv) opened perspectives in knowledge sharing (LORD, http://lord.bndmr.fr). Current production services of Orphanet developed ORDO, released in 2014, an ontology synchronized with their production database.

Proper citation: Disease core ontology applied to Rare Diseases (RRID:SCR_010308) Copy   

•   Source: SciCrunch Registry
  

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

Ontology of context-based healthcare access-control policies.

Proper citation: Situation-Based Access Control Ontology (RRID:SCR_010429) Copy   

•   Source: SciCrunch Registry
  

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

Metathesaurus of current procedural terminalogy (CPT).

Proper citation: Current Procedural Terminalogy Hierarchy (RRID:SCR_010300) Copy   

•   Source: SciCrunch Registry
  

http://purl.bioontology.org/ontology/OBOE-SBC

Extensible Observation Ontology for the Santa Barbara Coastal Long Term Ecological Research project (SBC-LTER). It extends core concepts defined in the OBOE suite that are particular to the Santa Barbara Coastal Long Term Ecological Research project''s data collection activities. These include specific measurement protocols, sites, etc. This is meant as a case study ontology for the Semtools project.

Proper citation: Santa Barbara Coastal Observation Ontology (RRID:SCR_010424) Copy   

•   Source: SciCrunch Registry
  

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

An ontology for dengue fever.

Proper citation: Dengue Fever Ontology (RRID:SCR_010304) Copy   

•   Source: SciCrunch Registry
  

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

Ontology of semantic types.

Proper citation: Semantic Types Ontology (RRID:SCR_010425) Copy   

•   Source: SciCrunch Registry
  

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

A standardized terminology of dermatologic diagnoses, therapies, procedures, and laboratory tests.

Proper citation: Dermatology Lexicon (RRID:SCR_010305) Copy   

•   Source: SciCrunch Registry
  

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

Diagnosis ontology of clinical care classification.

Proper citation: Diagnosis Ontology of Clinical Care Classification (RRID:SCR_010306) Copy   

•   Source: SciCrunch Registry
  

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

Ontology that provides a simple, integrated upper level ontology (types, relations) for consistent knowledge representation across physical, processual and informational entities. It provides vocabulary for the Bio2RDF (http://bio2rdf.org) and SADI (http://sadiframework.org) projects.

Proper citation: Semanticscience Integrated Ontology (RRID:SCR_010427) Copy   

•   Source: SciCrunch Registry
  

http://code.google.com/p/bitseq/

A software application for inferring expression levels of individual transcripts from sequencing (RNA-Seq) data and estimating differential expression (DE) between conditions.

Proper citation: BitSeq (RRID:SCR_009904) Copy   

•   Source: SciCrunch Registry
  

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

Anatomy Ontology of the Tick, Families: Ixodidae, Argassidae

Proper citation: Tick Gross Anatomy Ontology (RRID:SCR_010433) Copy   

•   Source: SciCrunch Registry
  

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

A set of 1,437 eligibility features that were organized into a feature hierarchy using 80 breast cancer trials.

Proper citation: Eligibility Feature Hierarchy (RRID:SCR_010314) Copy   

•   Source: SciCrunch Registry