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Welcome to the '''NCBO Public WIKI'''. This WIKI provides information about collaborative ontology development efforts, dissemination events conducted by the NCBO and publically shared materials from the NCBO.
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Welcome to the '''National Center for Biomedical Ontology (NCBO) public wiki'''. This wiki provides user guides and technical documentation for software developed by NCBO.
Please visit our [http://www.bioontology.org Main Site] for more information and materials.
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Note that as the NCBO project funding has ended, documentation for some projects or project details (n.b., NCBO BioPortal details) may be out of date. Pease send email to the BioPortal Support List
  
{| class="wikitable"
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Please visit our [http://www.bioontology.org main site] for more information about NCBO.
|-
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! style="background:#efefef;" | NCBO Links
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! style="background:#efefef;" | Shared Materials
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! style="background:#efefef;" | NCBC Links
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|-
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| [http://www.bioontology.org/ Home page]
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| [[Public Requirements Redirect|Public Requirements]]
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| [http://www.bisti.nih.gov/ncbc/ Home page of National Centers for Biomedical Computing]
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|-
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| [http://www.bioontology.org/wiki/index.php/NCBO_FAQ FAQ]
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| [[Shared Materials]]
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| [http://wiki.na-mic.org/Wiki/index.php/SDIWG:Software_and_Data_Integration_Working_Group NCBC Software and Data Integration Working Group (SDIWG) and Centers Discussion]
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|-
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| [http://www.bioontology.org/wiki/index.php/Dissemination_Wiki Dissemination]
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|-
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| [http://www.bioontology.org/wiki/index.php/News_Events_Publications News, Events and Publications]
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| [[Evaluation Activities]]
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| [http://wiki.na-mic.org/Wiki/index.php/SDIWG:_NCBC_Scientific_Ontologies NCBC Scientific Ontologies Working Group]
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|}
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=== Software ===
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__TOC__
*[http://bioportal.bioontology.org NCBO BioPortal] - Home page for BioPortal Web site
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* [http://sparql.bioontology.org/ NCBO BioPortal SPARQL Endpoint] - Access BioPortal via SPARQL queries
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* [http://www.bioontology.org/wiki/index.php/Category:NCBO_Virtual_Appliance BioPortal Virtual Appliance] - Contains BioPortal, Annotator, and Resource Index.
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* [http://www.bioontology.org/wiki/index.php/BioPortal_Release_Notes BioPortal Software Release Announcements]
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*[[NCBO-OOR Development]] - Documentation on how the Open Ontology Repository community can customize and advance BioPortal capabilities.
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=== User Support Documentation ===
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== Software ==
*[[BioPortal Help]] - General BioPortal help documentation.
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To follow is a list of software developed and maintained by NCBO:
* [http://www.bioontology.org/wiki/index.php/Using_NCBO_Technology_In_Your_Project Using NCBO Technology in Your Project] - Documentation on how to use NCBO Technology in your project
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=== Technical Documentation ===
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* [https://bioportal.bioontology.org BioPortal] - A web-based application for accessing and sharing biomedical ontologies
* [http://data.bioontology.org/documentation NCBO REST Web services] - Listing of all NCBO web services with usage documentation
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* [https://data.bioontology.org/ BioPortal REST API] - A RESTful API to access BioPortal content
* [http://www.bioontology.org/wiki/index.php/SPARQL_BioPortal BioPortal SPARQL Endpoint] - BioPortal SPARQL documentation
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* [[:Category:NCBO_Virtual_Appliance|BioPortal Virtual Appliance]] - Contains BioPortal and the BioPortal REST API, runs on Linux
* [[BioPortal UI URLs]] - Documentation on how to link back to BioPortal UI pages
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* [http://sparql.bioontology.org/ BioPortal SPARQL Endpoint] - Access BioPortal content via SPARQL queries ''(obsolete)''
* [http://www.bioontology.org/wiki/index.php/SampleCodeCookbook Code samples] - Sample code for common tasks with BioPortal Web services
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* [http://www.bioontology.org/wiki/index.php/Category:NCBO_Virtual_Appliance BioPortal Virtual Appliance] - Contains BioPortal, Annotator, and Resource Index.
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=== Ontology Development Projects ===
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Please refer to our [[BioPortal_Release_Notes|release notes]] page for change logs.
Below are links for ontology development projects that NCBO is involved in.
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*[[BRO:Main_Page]] - Biomedical Resource Ontology
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== Documentation ==
*[[TMO:]] - Translational Medicine Ontology  
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*[[NPO:Main_Page]] - NanoParticle Ontology
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* [[BioPortal Help|BioPortal]] - get help with the user interface and instructions for commonly performed tasks
*[[PATO:Main_Page]] - An ontology of phenotypic qualities
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* [http://data.bioontology.org/documentation BioPortal REST API] - see a list of available endpoints with usage instructions
*[[RO:Main_Page]] - OBO Relations ontology
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* [[:Category:NCBO_Virtual_Appliance|BioPortal Virtual Appliance]] - read a getting started guide and installation instructions
*[[CARO:Main_Page]] - Reference anatomical ontology
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* [[Using_NCBO_Technology_In_Your_Project|Using NCBO technologies in your project]] - get ideas for how to employ NCBO technologies in your website or application
*[[CL:Main_Page]] - OBO Cell ontology
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* [[SKOSSupport|SKOS support]] - view the specifics of BioPortal's support for SKOS vocabularies
*[[SO:Main_Page]] - Sequence Ontology
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* [[SPARQL_BioPortal|BioPortal SPARQL Endpoint]] - read about programmatic submission of SPARQL queries and the named graph structure
*[[Disease:Main_Page]] - Disease Ontology, and other ontologies pertaining to diseases and disorders
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* [[NCBO_Developer_Documentation|Developer documentation]]
*[[OCI:Main_Page]] - Ontology of Clinical Investigation
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=== Mail Support ===
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* [https://mailman.stanford.edu/mailman/listinfo/bioontology-support BioPortal Support List] - sign up to see and request community support for BioPortal
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* [https://mailman.stanford.edu/pipermail/bioontology-support/ BioPortal mailman email archives] - the usual mailman archive format for BioPortal support list
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* [http://ncbo-support.2288202.n4.nabble.com/ BioPortal nabble email archives] - BioPortal support email list archives in easier format to search and navigate
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== Ontology Development Projects ==
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These are some of the ontology development projects that NCBO participated in:
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* [http://bioportal.bioontology.org/ontologies/BRO Biomedical Resource Ontology]
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* [http://bioportal.bioontology.org/ontologies/TMO Translational Medicine Ontology]
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* [[NPO:Main_Page|NanoParticle Ontology]]
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* [http://bioportal.bioontology.org/ontologies/PATO Phenotypic Quality Ontology]
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* [[RO:Main_Page|OBO Relations Ontology]]
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* [[CARO:Main_Page|Common Anatomy Reference Ontology]]
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* [[CL:Main_Page|Cell Ontology]]
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* [[SO:Main_Page|Sequence Types and Features Ontology]]
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* [[Disease:Main_Page|Disease Ontology]], and other ontologies pertaining to diseases and disorders
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* [[OCI:Main_Page|Ontology of Clinical Investigation]]

Latest revision as of 11:58, 3 January 2018

Welcome to the National Center for Biomedical Ontology (NCBO) public wiki. This wiki provides user guides and technical documentation for software developed by NCBO.

Note that as the NCBO project funding has ended, documentation for some projects or project details (n.b., NCBO BioPortal details) may be out of date. Pease send email to the BioPortal Support List

Please visit our main site for more information about NCBO.


Contents


[edit] Software

To follow is a list of software developed and maintained by NCBO:

Please refer to our release notes page for change logs.

[edit] Documentation

[edit] Mail Support

[edit] Ontology Development Projects

These are some of the ontology development projects that NCBO participated in:

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