Difference between revisions of "PRO Consortium Workshop 2019"

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:Protein Informatics Resource
:Protein Information Resource
:Georgetown University Medical Center  
:Georgetown University Medical Center  
:3300 Whitehaven Street, NW, Suite 1200
:3300 Whitehaven Street, NW, Suite 1300
:Washington, DC 20007, USA
:Washington, DC 20007, USA

Revision as of 12:36, 20 August 2019

Date: October 23-24, 2019


Protein Information Resource
Georgetown University Medical Center
3300 Whitehaven Street, NW, Suite 1300
Washington, DC 20007, USA


The goals of this meeting are:

  • 1. To plan the future of the PRO
  • 2. To foster PRO's collaborations with other initiatives

Schedule: Wednesday, October 23, 2019

8:15 Breakfast

Advancing disease understanding with site information: PRO and UniProtKB

Chair: Darren Natale

8:45 Logistics and introductions (Barry Smith)
9:00 Meeting objectives (Darren Natale)
9:20 General introduction to PRO (Darren Natale)
9:45 PRO sites (Alan Ruttenberg)
10:15-10:30 Break

Uncovering disease mechanisms: connecting site annotations to ontologies

Chair: Judith Blake

10:30 UniProtKB Feature Viewer (Alexander Bateman)
11:00 UniProtKB's molecular impact information (Harold Drabkin) - connecting feature line information to ontologies
11:30 Disease Ontology (Melody Swan) - introduction to DO and how it can be used to go from UniProtKB variants to disease identifiers
12:00 Ontology for General Medical Science (Barry Smith) - introduction to OGMS and how it can be used to standardize UniProt Feature Table (FT) information
12:30-13:30 Lunch

Uncovering disease mechanisms: connecting variants to diseases

Chair: Judith Blake

13:30 Mouse models of human disease (TBD)
14:00 Extracting variant / disease associations from text (Cecilia Arighi)
14:00 Discovering molecular mechanisms underlying disease (Karen Ross, Natarajan Kannan) - the PRO/ProKinO/NeXtProt work as a model for what's to come
15:00-15:30 Break
15:30 TBD
TBD Protein aggregates (Lauren Wishnie)
17:00 Close of Day 1
18:00 Working dinner

Schedule: Thursday, October 24, 2019

8:15 Breakfast

Clinical discovery: connecting clinically-relevant information to proteoforms and complexes

Chair: Peter d'Eustachio

8:45 Introduction to Day 2 theme / Logistics (Barry Smith)
9:00 Reactome's disease pathways (Peter d'Eustachio) - how they can be used with PRO to make new proteoform/disease associations
9:30 Using DTO and PRO for Drug target discovery (Stephan Schürer)
10:00 Connecting antibodies to epitopes and proteins (Randi Vita)
10:30-10:45 Break

Cell type discovery: proteoform expression and clinically-relevant cell types

Chair: Alexander Diehl

10:45 Cell Ontology and its use of PRO (Alexander Diehl)
11:10 ImmPort and its use of PRO (Patrick Dunn)
11:40 The Kidney Precision Medicine Project (Oliver He) - with an emphasis on how scRNA can detect new isomoforms
12:05 Proteoform-based cell type dictionary (Alex Diehl)
12:30-1:30 Lunch
13:30 TBD - includes PRO grant working session
16:00 Close of meeting


Alexander Bateman (EBI)*
Alexander Diehl (Buffalo)
Cecilia Arighi (Delaware / PRO)
Judith Blake (JAX)
Peter d'Eustachio (NYU)
Alexander Diehl (Buffalo)
Harold Drabkin (JAX)
Patrick Dunn (ImmPort)
Yongqun (Oliver) He (Michigan)
Natarajan Kannan (Georgia)
Richard LeDuc (Northwestern)
Birgit Meldal (EBI)*
Darren Natale (Georgetown)
Li Ni (JAX)
Karen Ross (Georgetown)
Alan Ruttenberg (Buffalo)
Stephan Schürer (Miami)
Henry Schaefer (ImmPort)
Barry Smith (Buffalo)
Christian Stoeckert (Penn)
Melogy Swan (Baltimore)
Paul Martin Thomas (Northwestern)
Randi Vita (San Diego)
Lauren Wishnie )
Cathy Wu (Delaware / PRO)
  • =online

Please contact Barry Smith for further information.


The Protein Ontology Consortium
National Center for Ontological Research