![[Home Page]](/images/poc_logo.gif){kind=logo} |
| Home | Search/Browse Plant Ontologies | Download Ontologies | Request PO terms | Documentation | Tutorials | Mail Archives | Site Map | Feedback |
| |||||||||
|
About Plant Ontology (PO)
The Plant Ontology is a controlled vocabulary (ontology) that describes plant anatomy and morphology and stages of growth and development for all plants. The goal of the PO is to establish a semantic framework for meaningful cross-species queries across gene expression and phenotype data sets from plant genomics and genetics experiments.
Beginning in January 2011 (Version #14), the Plant Ontology was merged into a single ontology file (from two separate files) encompasing the following two aspects:
Plant Anatomy
Botanical terms describing plant structures and other antomical entities and the relationships between them. Examples of plant structures are plant organ, plant cell, whole plant, portion of plant tissue, vascular system, etc.
Plant Growth and Developmental Stage
A controlled vocabulary of terms describing (i) whole plant growth stages and (ii) plant structure developmental stages. Examples are seedling growth, rosette growth, leaf development stages, embryo development stages, flower development stages, etc.
How can the PO be used?
Integrating the PO into your annotations and bioinformatics portals will facilitate cross-database queries and the comparative analysis of gene expression and phenotypes.
You can ask questions such as:
What differential set of genes regulates the development of a leaf or leaf-like structure found in angiosperms, bryophytes and gymnosperms? What phenotypes and expressed genes are common to flower development in both dicots and monocots? To answer these questions (and many others), PO terms are being used by databases such as TAIR, NASC, Gramene, SGN and MaizeGDB to describe expression patterns of genes and the phenotypes of mutants and natural variants.
News Archive... What's New...!
Come check out our prototype PO web service for providing PO terms from the AmiGO database. PO Web Services
The latest release of the PO, version #16a, is available on our Ontology Browser. New Release
This interim data releaes adds new annotations for Physcomitrella patens and updated annotations for Zea mays. There are no changes to the ontology relative to version #16.
In collaboration with MaizeGDB, we have recently added ~1.5 million new associations between Plant Ontology terms and ~35,000 Zea mays gene models from the recent sequencing of the Maize genome. These associations are based on a large NimbleGen microarray data set profiling transcription patterns in 60 tissues of the inbred line B73. More information on the data set and the mappings can be found at the MaizeGDB site.
This release also features the addition of Spanish and Japanese translations of the term names.
For more information and to view a summary of the latest changes, please visit: October 2011 Release Page
Upcoming Presentations
PAG 2012, Jan 14th-18th, 2012, San Diego,CA
The PO will host an Ontology Workshop on Saturday morning, Jan. 14th.
Come and listen to a variety of presentations about accessing and utilizing ontologies and web services, including the GO, Protein Ontology, the NCBO and the PO. There will be a short panel discussion at the end.On Saturday afternoon, the PO will present in the Non-seed Plant Workshop. On Sunday morning, Jan. 15th, we will take part in the Plant Phenotypes Workshop. We will also present a Computer Demo On Monday afternoon, Jan. 15th. Come visit us at the Outreach Booth in the Exhibit Hall. Times TBA.
Release notes
The latest release, Version #16 (Oct, 2011) is now available on our Ontology Browser.Find the most recent information on the database and website changes by visiting the release notes page.
Participants and Contributors
The Oregon State University, New York Botanical Garden and the Cornell University are Consortium's core funded members. Collaborators and contributors include the Open Biological and Biomedical Ontologies project (OBO Foundry), the Gene Ontology Consortium (GO), the Generation Challenge Programme, SoyBase, the Solanaceae Genomics Network, the Arabidopsis Information Resource TAIR, MaizeGDB, PLEXdb, the International Rice Informations System (IRIS), Oryzabase and the Moss Computational Biology Resource (COSMOSS) / (University of Freiburg).
Acknowledgements
We kindly acknowledge the Gene Ontology Consortium, all the projects using PO in their applications and all the reviewers for their valuable feedback and intellectual inputs. The core activities on ontology development, mapping to common use vocabularies, outreach and training are funded by the National Science Foundation (Award #0822201). It was previously supported by the NSF Award #0321685 to the Gramene database.
Last modified: Fri Jan 13 11:12:02 2012
| | Feedback/Contact Us | Copyright Statement |  |
 Plant Ontology by Plantontology.org is licensed under a Creative Commons Attribution-NoDerivs 3.0 United States License. Based on a work at www.plantontology.org. |
