This schedule may be subject to changes. For further details please check with the organizers.

Sunday-Thursday 8am - 6pm
Friday 8am-3pm
None on Saturday
Location: lobby of MB Building

Monday 6pm - 9pm in lobby of MB Building
Wednesday 6pm - 9pm in McKibbin's Pub, 1426 Bishop St
Thursday 6pm - 9pm on 6th floor of MB Building

All events are in the MB Building, 1450 rue Guy

Monday, July 8, Day 1
Welcoming remarks
Session 1: Physiology
Personalized therapeutics powered by ontology-transforms
Keynote: Yves Lussier

Three Ontologies to define phenotype measurement data
Mary Shimoyama, Rajni Nigam, Leslie McIntosh, Rakesh Nagarajan, Treva Rice, Dc Rao and Melinda Dwinell
10:15am Exploring the use of ontologies and automated reasoning to manage selection of reportable condition lab tests from LOINC
Karen Eilbeck, Jason Jacobs, Sunanda McGarvey, Cynthia Vinion and Catherine Staes
10:30am coffee break
An OWL knowledge base for classifying and querying collections of physiological models: A prototype human physiome
Maxwell Neal, Daniel Cook and John Gennari.
Ontological Model of Abnormal States and its Application in the Medical Domain
Yuki Yamagata, Hiroko Kou, Kouji Kozaki, Riichiro Mizoguchi, Takeshi Imai and Kazuhiko Ohe.
Ontology Based Annotation of Contextualized Vital Signs
Albert Goldfain, Min Xu, Jonathan Bona and Barry Smith.
lunch on your own (places to eat)
Session 2: Engineering
Keynote: Deborah McGuiness

OntoMaton: Google spreadsheets meet NCBO BioPortal services
Eamonn Maguire, Alejandra Gonzalez-Beltran, Patricia Whetzel, Susanna-Assunta Sansone and Philippe Rocca-Serra.
Visualizing ontology mappings to help ontology engineers identify relevant ontologies for their reuse
Simon Kocbek, Jin-Dong Kim, Jean-Luc Perret and Patricia L. Whetzel.
Crowdsourcing Ontology Verification
Jonathan M. Mortensen, Paul R. Alexander, Mark A. Musen and Natalya F. Noy.
Finding common ground: integrating the eagle-i and VIVO ontologies
Carlo Torniai, Shahim Essaid, Brian Lowe, Jon Corson-Rikert and Melissa Haendel.
coffee break
Early career track
An OGMS-based Model for Clinical Information (MCI)
Heiner Oberkampf, Sonja Zillner, Bernhard Bauer and Matthias Hammon.
Diagnostic criteria and clinical guidelines standardization to automate case classification
Melanie Courtot, Jie Zheng, Chris Stoeckert, Ryan Brinkman and Alan Ruttenberg.
Representing Intracoranal Tooth Restorations in the Ontology for Oral Health and Disease
William Duncan, Titus Schleyer and Alan Ruttenberg.
The Web as a Distributed Biochemical Reactor: Semantically Enabled Metabolic Fate Prediction
Leonid L. Chepelev and Michel Dumontier
What’s in a Genotype?: An Ontological Characterization for Integration of Genetic Variation Data
Matthew Brush, Chris Mungall, Nicole Washington and Melissa Haendel.

Panel Discussion #1
Q1: How will biomedical research benefit from big data, ontologies and the semantic web?
Q2: Will automated, data-driven methods (networks, text mining, etc) outperform those using curated ontologies in terms of information content, cost and performance of task?
Yves Lussier, Trey Ideker, Mark Musen, Sivaram Arabandi

Posters & Systems Demonstrations
2 hours

Tuesday, July 9, Day 2
Session 3: Systems Biology
A gene ontology constructed from molecular networks
Keynote: Trey Ideker
Enabling semantic search in a bio-specimen repository
Shahim Essaid, Carlo Torniai and Melissa Haendel.
10:15am coffee break
11:00am ONSTR: The Ontology for Newborn Screening Follow-up and Translational Research
Snezana Nikolic, Prabhu Shankar, Sivaram Arabandi, Akshaye Dhawan, Rajshekhar Sunderraman, Sham Navathe, Kunal Malhotra and Rani Singh.
11:20am Development of an Application Ontology for Beta Cell Genomics Based On the Ontology for Biomedical Investigations
Jie Zheng, Chris Stoeckert and Elisabetta Manduchi.
11:40am Towards a Consistent and Scientifically Accurate Drug Ontology
William Hogan, Josh Hanna, Eric Joseph and Mathias Brochhausen.
12:00pm flash updates
lunch on your own (places to eat)
Session 4: Ontology
Information Extraction in the Full-Text Age – Can Current Ontologies Cope with Elaborate Text Structure, and why should they?
Keynote: Udo Hahn
Human Development Domain of the Ontology of Craniofacial Development and Malformation
Jose L.V. Mejino Jr, Ravensara S Travillian, Timothy C Cox, James F Brinkley and Linda G Shapiro.
coffee break
Measuring Cognitive Functions: Hurdles in the Development of the NeuroPsychological Testing Ontology
Alexander P. Cox, Mark Jensen, Alan Ruttenberg, Kinga Szigeti and Alexander D. Diehl.
Refining the Granularity of Abstraction Networks for the Sleep Domain Ontology
Christopher Ochs, Zhe He, Yehoshua Perl, Sivaram Arabandi, Michael Halper and James Geller.
Ontology-based reinterpretation of the SNOMED CT context model
Catalina Martínez Costa and Stefan Schulz.

Panel Discussion #2
Q1. What constitutes a result in ontology research and how must these be evaluated in order to be suitable for publication? Q2 What is the most feasible approach to facilitate interoperability of a growing number of ontologies?
Udo Hahn, Deborah McGuiness, Barry Smith, Stefan Shulz
15 min
concluding remarks & announcement of ICBO 2014