POC Outreach Events

Year 2012

PAG 2012

PAG 2012 Ontology workshop: Saturday January 14th from 10:20am-12:30pm

Use of Ontologies for Organizing Plant and Animal Genomics Data

Year 2011

• Semantic Web Applications and Tools for Life Sciences Workshop Univ. of London and the Wellcome Trust Collection Conference Center (London, UK), Dec 6-9

JP will present a poster entitled "Planteome Annotation Wiki: A Semantic Web Application for the Community Curation of Plant Genotypes and Phenotypes". (abstract: SWAT4LS_2011_Proceedings-Planteome_Annotation_Wiki.pdf). He will also participate in a "hackathon" software development session meant to spur innovation in semantic web applications.

• Plant Genomes & Biotechnology: from Genes to Networks Cold Spring Harbor Laboratory, November 30 - December 3, 2011

RW will present a poster entitled "Using the Plant Ontology to improve the interoperability of genomic and phenomic data sets". (link to abstract: Media:PO_abstract_PGB_CSHL2011.pdf

• Departmental seminar: Facultad de Ciencis Naturales y Museo , Universidad Nacional de La Plata, Argentina, Nov. 1, 2011

MAG presented: 'El valor de las fosiles para descrifar la historia evolutiva de las angiospermas y breve introduccion a la Ontologia de Plantas"; Hosted by the Paleobotany Laboratory- Dr. Ari Iglesias.

• Departmental seminar: Departamento de Ecología, Genética y Evolución, Universidad de Buenos Aires, Argentina, Oct. 31, 2011

MAG presented: "Paleobotanica en la era de la Biologia Molecular y breve introduccion a la Ontologia de Plantas"; Hosted by the Paleobotany and Palynology laboratory- Dr. Maria del Carmen Zamaloa.

• 12th Genomic Standards Consortium Meeting (GSC 12), Max Planck Institute for Marine Microbiology, Bremen, September 28-29, 2011

Barry Smith addressed Plant Ontology issues in two presentations, on “An Introduction to Ontology as a Strategy for Data Integration”, and on “The Structure of the Environment Ontology”)

• Syngenta Presentation. Global webinar, September 26, 2011

PJ and JP presented our current work on the Planteome Annotation Wiki to the IT Research and Development Dept. at Syngenta. (presentation: Jaiswal Lab - Semantic Wiki Presentation - 2011.pdf)

• 2011 CGRB Fall Conference Oregon State University, September 18th-19th, 2011.

Two posters related to the Plant Ontology were presented.

LC presented the poster: "Expanding the Plant Ontology: Linking Plant Anatomy and Development to Genomics Across Plant Taxa".

JP presented a poster: "Planteome Annotation Wiki: A Semantic Application for the Community Curation of Plant Genotypes and Phenotypes". This explains the development of a semantic web application for annotation curation. This web application makes use of PO data via a newly created web service and includes an initial data set built from PO GAF (.assoc) files for Oryza sativa.

• Moss 2011 PO presentation (Black Forest, September 11th - 15th, 2011, done via Webex) Moss 2011 Meeting- PO presentation Sept 12, 2011

• NSF Plant Genome Awardee meeting Sept, 2011. Washington, DC. Submission: Media:2-pager_plant_ontology-2011.pdf

• ASPB Plant Biology meeting 2011, PB2011, Minneapolis, Minn. Aug 6th-10th, 2011

PO and Gramene hosted a Data Curation Workshop

LC presented a PO poster and we took part in an Plant Biology 2011 Outreach Booth

• International Botanical Congress (IBC2011), July 23rd – 30th 2011

Symposium hosted: Bio-Ontologies for the Plant Sciences under the Genetics, Genomics and Bioinformatics theme.

Please see the IBC 2011 Bio-Ontologies Symposium wiki page for more details.

Press release about the PO at IBC 2011: Media:IBC_2011_Congress_News_Thursday_28_July_WEB.pdf‎

POC presented talks:

Pankaj Jaiswal, Oregon State University, Ontologies for Plant Biology - IBC 2011

Dennis Stevenson, Genomics of Seed Plants and Ontologies.

Ramona Walls, The New York Botanical Garden, The Plant Ontology: an updated tool for all plant biologists - IBC 2011. Link to PDF of presentation: Media:Walls_PO_presentation_IBC11.pdf

• International Conference on Biomedical Ontologies IBCO 2011 July 26-30, 2011

LC co-organized the session on "From Fins to Limbs to Leaves: Facilitating Anatomy Ontology Interoperability" and presented a flash talk "The Plant Ontology: Development of a Reference Ontology for all Plants"

LC also presented the PO in the OBO Foundry session as part of the application for OBO Foundry Membership link

*Plant Working Group Meeting of the Phenotype Ontology RCN,Google Campus in Boulder, CO; June 1-3, 2011

All four (Plants, Arthropoda, Vertebrates and Bioinformatics) Working Group sessions ran concurrently to maximize the benefits of emerging results, group experiences and collective synergy.

*Semantic Web Workshop, June 6-7, 2011, Santa Fe, NM.

The Plant Ontology was represented at the 2011 Semantic Web Workshop. Hosted by Damian Gessler and the iPlant Collaborative, this two-day workshop focused on biological applications for semantic web services. JP and JE attended.

* Presentation to Physcomitrella Collaborators May 2011 Plant Ontology Webinar- May 2011 release

• Phenotype RCN Meeting Durham, NC, February 25-27, 2011 [1]

The Plant Ontology attended the inaugural meeting of the newly-funded Phenotype Ontology RCN at the National Evolutionary Synthesis Center in Durham, NC.

Plant and Animal Genome XIX Conference

PAG 2011, San Diego, CA. January 15-19, 2011

LC, RW, JP and DWS presented a PO poster and a computer demo.

LC took part in the Plant Phenotypes workshop and panel discussion

We also hosted a PO Collaborators workshop on Sunday, Jan 16th, 2011.

Year 2010

• NETTAB 2010 conference on Biological Wikis, Nov 29-Dec 1, 2010, Naples, Italy

Justin Preece presented the poster: A Semantic Wiki for Genotype/Phenotype Annotation in Plant Species" File:NETTAB 2010 poster proposal.pdf

• Seminar, Department of Botany and Plant Pathology, Oregon State University- Thurs, Oct 14th, 2010.

Laurel presented a seminar: Bridging Plant Anatomy and Genomics in the Digital Era: Recent Advances at The Plant Ontology File:Cooper BPP final (LC 10-14-10).pdf

• Seminar, New York Botanical Garden. October 6, 2010. Ramona Walls presented a seminar 'Plant Ontology: A tool for structural, developmental and molecular plant biologists'

• American Society of Plant Biologists, Quebec, Montreal, Canada. Jul. 31 - Aug. 4, 2010

Laurel Cooper and Pankaj Jaiswal attended. Laurel presented a poster:The Plant Ontology: A Database for Plant Genomics.

Cooper, L., Elser, J., Walls, R., Stevenson, Dennis W., Smith, B., Mungall, C. J., Gandolfo, M. A., and Jaiswal, P. (2010). The Plant Ontology: A Database for Plant Genomics. American Society of Plant Biologists, Quebec, Montreal, Canada

We also organized a Plant Biology 2010 Outreach Booth: Plant Genome Resources Outreach Booth.

• PO-Gramene Annotation Workshop at Plant Biology 2010 PO-Gramene Annotation Workshop

A workshop to demonstrate the Phenote Annotation Tool was held at the ASPB Plant Biology Meeting in Montreal, Quebec, Canada.

You can find a link to the workshop page at: Phenote Workshop

• Botany 2010, Providence, RI. Jul. 31 - Aug. 4, 2010. Dennis Stevenson, Alejandra Gandolfo, and Ramona Walls attended.

Ramona Walls gave a presentation for the Developmental and Structural Section Abstract-BSA2010 File:Presentation-BSA2010.pdf

Walls, R., Cooper, L., Elser, J., Stevenson Dennis W., Smith, B., Mungall, C. J., Gandolfo, M. A., and Jaiswal, P. (2010). The Plant Ontology: a tool for structural, developmental, and molecular plant biologists. Providence, RI.

• Bio-Ontologies 2010: Semantic Applications in Life Sciences July 9th-10th, 2010

Laurel Cooper and Ramona Walls attended and presented a poster and a one page write-up that was presented as a 'flash update talk'

File:PO Poster BioOntologies2010.pdf

File:PO FlashTalk BioOntologies2010.pdf

File:Walls Cooper BioOntologies29.pdf

Walls, R., Cooper, L., Elser, J., Dennis W. Stevenson, Mungall, C. J., Gandolfo, M. A., and Jaiswal, P. (2010). The Plant Ontology: A Common Reference Ontology for Plants. Boston, MA.

• Cell Ontology Workshop,Jackson Laboratory, Bar Harbor, Mass. May 18th-19th, 2010

Laurel Cooper and Ramona Walls attended and Laurel presented a talk "Introduction to the Plant Ontology™"

• Plant and Animal Genome XVIII Conference, San Diego, CA. Jan. 9-13, 2010

Laurel Cooper and Justin Elser Poster and Computer Demonstration

Elser, J., Cooper, L., and Jaiswal, P. (2010). Plant Ontology: Databases And Applications. San Diego, CA.

Year 2009

• GCP Ontology Workshop Rome, Italy, April 20-22, 2009
  • Chih-Wei Tung, Gave a talk on "Plant and Trait Ontology"

• 3rd International Biocuration Conference Berlin, Germany, April 16-19, 2009
  • Chih-Wei Tung, POC poster presentation

• Plant & Animal Genome Conference San Diego, Jan 10-14, 2009
  • Chih-Wei Tung, POC poster presentation

Year 2008

• MetaCyc database workshop Ithaca, Oct 21, 2008
  • Chih-Wei Tung, present a talk "An Introduction to the Plant Ontology Database "
• Plant & Animal Genome Conference San Diego, Jan 12, 2008
  • Chih-Wei Tung, POC poster presentation

Year 2007

• ASPB 2007 Chicago, July 7-11, 2007
  • Chih-Wei Tung, presentation, poster abstract
    

• RCN Plant and Trait Ontology Workshop, CSHL, NY, June 10-11
  • Doreen Ware, Pankaj Jaiswal, Shuly Avraham, Chih-Wei Tung
    

• AGRONOMICS workshop " Ontologies, Standards and Best Practices", Gent, Belgium, May 21-23
  • Chih-Wei Tung, presentation

• ITMI Israel, April 16-20, 2007
  • Shuly Avraham, poster

• PAG XV CA, January 13-17, 2007
  • Chih-Wei Tung, poster abstract

Year 2006

• PAG XIV Ontology Workshop (2006): Ontologies for Databases
  • Anuradha Pujar: Development of a generic plant growth stage ontology
  • Katica Ilic: Application of plant ontologies

Year 2005

• PAG XIII Ontology Workshop (2005): Development and Implementation of Ontologies in the Database
  • Leonore Reiser: Using the Plant Ontologies
  • Katica Ilic: Controlled vocabularies for describing and cmparing phenotypes and gene expression
    
  • Pankaj: posters

• The 16th International Conference on Arabidopsis Research, Madison, WI, June 18, 2005
  • Katica Ilic and Leonore presentations
  • Poster

• The 8th Annual Bio-Ontologies Meeting at the ISMB, June 24, 2005
  • Pankaj Jaiswal, presentation

• The 47th Maize Genetic Conference, WI, March 2005 Poster

• Frontiers in Plant Biology, MO, April 2005 Poster

• The XVII International Botanical Congress, Vienna, Austria, July, 2005. Felipe, poster

Year 2004

• Annotation Demo, 04/07/2004
• Botany 2004, Abstract #347 (Toby.ppt) and #351 (Felipe.ppt)
• ASPB 2004, FL, July, Abstract #864, Poster (KI), Workshop (PJ and LR)
• PAG XII 2004, CA, January, Abstract # 927, Poster (Pankaj), abstract

Year 2002

• PAG X Bioinformatics: Database
  • Leszek Vincent: The POC and Plant ontologies (poster)
  • Leszek Vincent: The POC and Plant ontologies - silk purpose from a maize ear (workshop: ontology)