Workshops

Exploiting Big Data Semantics for Translational Medicine

Date:

March 25-26, 2013


Meeting Place:

Indiana Memorial Union, Indiana University
900 E 7th St
Bloomington, IN 47405

Indiana University Campus Map ยป

Photos:

Organizers:

Ying Ding


Associate Professor, Information Science, SLIS, Indiana University, Bloomington, IN
dingying@indiana.edu
PR^2 | Slides

Katy Borner

Victor H. Yngve Professor of Information Science, SLIS, Indiana University
Director, Cyberinfrastructure for Network Science Center & Curator of Mapping Science exhibit, Bloomington, IN
katy@indiana.edu
PR^2 | Slides

Eric Gifford


Merck

Workshop Goals & Agenda:

There has recently been an explosion of public and proprietary healthcare and drug discovery data, and the development of powerful semantic, network and visualization technologies for integrating and mining these data, including the major E.U. sponsored OpenPHACTS project. These novel datasets and technologies open up many possibilities for drug discovery and translational medicine, including drug repurposing, target identification, gene-disease association and patient population mapping. In parallel, major efforts are underway such as the U.S. NCATS at NIH that support translational medicine and streamlined discovery of new medical therapies in the public sphere.

This small, focused workshop will bring together invited leading practitioners in semantic technologies, network science and visualization, and computational translational medicine to identify the most critical areas for collaboration between these fields to maximize impact on the next generation of disease treatments.

Schedule:

Monday, March 25, 2013

10:00am Student Meet Time - Indiana Memorial Union Persimmon Room
12:00pm Welcome by Organizers - Indiana Memorial Union Persimmon Room
12:15pm Introduction by Participants (5 min per person/organization)
2:30pm Break
3:00pm Overview Talks (Open for public)
Indiana Memorial Union, Dogwood Room
New Opportunities for biomedical science and drug discovery using semantic technologies
Erik Schultes, Leiden University
New Opportunities for biomedical science and drug discovery using semantic technologies
David Wild, Indiana University
Driving translational medicine through big data and ontologies
Nigam Shah, Stanford University
Open Code and Open Education: The Information Visualization MOOC
Katy Borner, Indiana University
5:00pm Break
5:30pm Discussion of Opportunities and Challenges
6:30 pm Adjourn
7:00pm Joint dinner brainstorm
Irish Lion Restaurant
212 W Kirkwood Ave Bloomington, IN 47404

Tuesday, March 26, 2013

9:00am Light Breakfast - Indiana Memorial Union Persimmon Room
9:30am Breakout Session - Indiana Memorial Union Persimmon Room and Sassafras Room
11:00am Breakout Session Reports
[Session 1 | Session 2 | Session 3]
11:30am Second Best Ideas
12:30pm Joint Lunch
1:30pm Breakout Session
2:30pm Breakout Session Reports
3:00pm Break
3:15pm Financials for Horizontal and Vertical R&D Panel Discussion
4
4:00pm Collaboration and Funding Opportunities
5:00pm Adjourn

Participants Attending:

Gary Berg-Cross

Gary Berg-Cross

Executive Secretariat of the Spatial Ontology Community of Practice (SOCoP)

PR^2 | Slides
Christopher Chute

Christopher Chute

Professor of Medical Informatics; Associate Professor of Epidemiology, Mayo Clinic
PR^2 | Slides

Michel Dumontier

Michel Dumontier

Stanford University
PR^2 | Slides

no image

Craig Eckert

CEO of Chalk Labs
PR2 | Slides

Rajarshi Guha

Rajarshi Guha

Informatics Scientist, NIH Chemical Genomics Center
PR^2 | Slides

Peter Li

Peter Li

Assistant Professor of Medical Informatics, May Clinic
PR^2 | Slides

Erik Schultes

Erik Schultes

Leiden University
Slides

Nigam Shah

Nigam Shah

Assistant PRofessor of Medicine, Biomedical Informatics, Stanford Center for Biomedical Informatics Research
PR^2 | Slides

Amit Sheth

Amit Sheth

Professor: Computer Science & Engineering, Wright State University
PR^2

Jeff Sutherland

Jeff Sutherland

Eli Lilly
PR^2 | Slides

Valery Tkachenko

Valery Tkachenko

CTO for RSC eScience
Slides

Tony Williams

Antony Williams

VP Strategic Development, Head of Cheminformatics, Royal Society of Chemistry
PR^2

Jeremy Yang

Jeremy Yang

Manager, Systems & Programming, University of New Mexico
PR^2 | Slides

Philip Yu

Philip Yu

Professor and Wexler Chair in Information Technology, Univesrity of Illinois at Chicago
PR^2 | Slides

Interested But Cannot Attend:

Vijay Bulusu

Vijay Bulusu

Pfizer
PR^2

Kay Connelly

Kay Connelly

Professor, College of Information Science and Technology, Drexel University

Associate Professor, Computer Science Department, Indiana University Bloomington, Co-director of CLEAR Health Information and Pervasive Health Information Technology (PHIT) Lab

Jon Duke

Jon Duke

Research Scientist, Regenstrief Institute, Inc.; Assistant Professor Medicine, Indiana University School of Medicine

Paul Groth

Paul Groth

Assistant Professor, VU University Amsterdam

Vasant Honavar

Vasant Honavar

Professor of Computer Science, Iowa State University

Mic Lajiness

Mic Lajiness

Eli Lilly
PR^2

Barend Mons

Barend Mons

Associate Professor, Bio-Semantics, Department of Medical Informatics, Erasmus Medical Centre, University of Rotterdam; Department of Human Genetics, Leiden University Medical Centre

Mark Musen

Mark Musen

Professor of Medicine (Biomedical Informatics); Division Head (BMIR); Co-Director, Biomedical Informatics Training Program; Stanford Center for Biomedical Informatics Research

Tudor Oprea

Tudor Oprea

Professor and Chief, Translational Informatics Division, Department of Internal Medicine at University of New Mexico

Dan Robertson

Dan Robertson

Sr Director - LRL Research IT at Eli Lilly and Company

Mark Schreiber

Mark Schreiber

Associate Director of Knowledge Engineering at Novartis

Adam West

Adam West

Eli Lilly
PR^2

Maria Zemankova

Maria Zemankova

Program Director, National Science Foundation

Background Information

This is the fourth workshop of its kind, see

The "Plug-and-Play Macroscopes" paper.
Information Visualization MOOC that teaches how to use the tools.

Travel/Housing:

Please contact Samantha Hale (ude.anaidni@elahjs) for travel arrangement.

Directions:

See the contact page for the Cyberinfrastructure for Network Science Center, http://cns.iu.edu/contact.html or contact Samantha Hale (ude.anaidni@elahjs.)

Acknowledgements:

This effort is supported by the James S. McDonnell Foundation and the Cyberinfrastructure for Network Science Center at Indiana University.

Thank you to our generous sponsors: