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Protein Ontology Kick-Off Meeting

Created by Meher Shruti S Yerramalla, last modified by Darren Natale on Feb 26, 2021

The inaugural meeting of the Protein Ontology project will take place in Georgetown University (Harris Building, Monday 3: Conference Room 1300, Tuesday 4: Conference Room 4200), Washington DC on December 2-4, 2007. This is an internal meeting.

The goals of the meeting are:

to present the PRO ontology and to subject it to preliminary critique;
to clarify the relations between PRO and its neighbor ontologies, between PRO and the representations in protein sequence databases, and between PRO and GO sequence annotations;
to establish plans for PRO's further development, dissemination and use..


Sunday, December 2

Arrival of Workshop Participants

6:30pm Dinner for Workshop Participants (Red Ginger [1]; Meet in Hotel Lobby at 6:15pm)

Monday, December 3

Location: Conference Room 1300

8:30am Continental Breakfast

10:00am-10.30am Break

10.30am-12:15pm Session 2: The Protein Ontology within the OBO Foundry (Barry Smith)

6:30pm Dinner for Workshop Participants (Red Ginger [1]; Meet in Hotel Lobby at 6:15pm)

presentation by Lindsay Cowell on OBO Foundry Methodologies

12:15pm-1:30pm Lunch

1:30pm-3:30pm Session 3: The Protein Ontology and Its Neighbors (Darren Natale)

presentation by James W. Brown on the RNA Ontology
presentation by Karen Eilbeck on the Sequence Ontology
presentation by Richard H. Scheuermann on HLA Proteins

3.30pm-4:00pm Break

4:00pm-5:00pm Session 4: PRO, GO and GO Annotations (Chris Mungall)

presentation by Harold Drabkin on GO Annotation to Protein Isoforms

6:30pm Dinner (Heritage India [2]; Meet in Hotel Lobby at 6:15pm)

Tuesday, December 4

Location: Conference Room 4200

8:30am Continental Breakfast

9:00am-10:15am Session 5: Ontologies and Databases (Alan Ruttenberg)

presentation by John Westbrook on the Representation of Protein Structure and Experiment in the Protein Data Bank (PDB)

10:15am-10.30am Break

10:30am-12:30pm Session 6: The Protein Ontology and Its Users (Judith Blake)

presentation by Bill Bug on PRO and SO in Neuropathology and Neuropharmacology
presentation by Gopal Gopinathrao on Reactome and the Future of PRO

12:30pm-1:30pm Lunch

1:30pm-4:00pm Session 7: Next Steps (Suzanna Lewis)

Documents (pre-workshop)

DocumentRevision DateRelevant to
Framework for a Protein Ontology27 Nov 2007Session 1
PRO.obo (beta version)30 Nov 2007Session 1
PRO neighbors - list30 Nov 2007Sessions 2, 3, 4, 6
PRO neighbors - relations29 Nov 2007Sessions 1, 3, 4
PRO neighbors - boundaries29 Nov 2007Sessions 2, 4

Documents (new)

Issues to address [3]

PRO diagram revision [4]


Blake [5]

Brown [6]

Bug [7]

Cowell [8]

Drabkin [9]

Eilbeck [10]

Gopinayhrao [11]

Lewis [12]

Mungall [13]

Natale [14]

Ruttenberg [15]

Scheuermann [16]

Smith [17]

Westbrook [18]

Wu [19]


Cecilia ArighiGeorgetown University Medical
Judith BlakeThe Jackson
James W BrownNC State
Lindsay CowellDuke Institute for Genome Sciences &
Harold DrabkinThe Jackson
Karen EilbeckUniversity of
Gopal GopinayhraoCold Spring Harbor
Zhangzhi HuGeorgetown University Medical
Suzanna LewisLawrence Berkeley National
Jerry LiNIGMS /
Hongfang LiuGeorgetown University Medical
Chris MungallLawrence Berkeley National
Darren NataleGeorgetown University Medical
Alan RuttenbergScience
Richard ScheuermannUT Southwestern Medical Center at
Barry SmithSUNY at
John WestbrookRutgers, The State University of New
Cathy WuGeorgetown University Medical