November, 2010

Houston, Texas

Tissue Banks and Pathology Tools

Workspace Face to Face

Center for Biomedical Informatics and Information Technology, National

Cancer Institute

Logistics

• Restrooms: Outside the Phantom Ballroom to your left• Wireless:

• Hotel Wireless: hotelzaza (zenet) password: houston• Additional Access Point: caTissue password: password 

• Time: • Please refer to the Agenda in your packet. We will try to

stay to the times noted. If there are topics that need more discussion than the time allotted, we will mark the discussion for formal follow-up. Thank you for being considerate.

TBPT Team

• Ian Fore, D. Phil• Associate Director, Biorepository and Pathology Informatics

• Anna Fernandez, Ph.D.• TBPT Workspace Lead, Booz Allen Hamilton

• Beth Leary DiGiulian• TBPT Workspace, Booz Allen Hamilton

• William (Brent) Lander, M.S.• TBPT Technical Lead SAIC-F

• Elizabeth (Libby) Prince• TBPT Project Manager, Sapient Government Services

• Andrew Breychak, PMP• TBPT Project Manager, Sapient Government Services

• Debra Hope, Ph.D.• Life Sciences Product Representative, 3rd Millennium, Inc.

NCI CBIIT Tissue/Biospecimen Knowledge Center Staff Attending

• David Mulvihill, MT(ASCP), PMP • Knowledge Center

Operations Manager• Mark Watson, M.D., Ph.D.

• Knowledge Center Director• Rakesh Nagarajan, M.D., Ph.D.

• Knowledge Center Co-Director

• Bijoy George, MBA, PMP• caTissue Development

Project Manager

• Amy Brink• Sr. Medical Technologist,

Knowledge Center Domain Expert

• Shehil Gupta• Knowledge Center Domain

Expert• Kunal Kamble

• Knowledge Center Technical Expert

National Cancer Institute Center for Biomedical Informatics and Information Technology (Non-TBPT Attending)

• Avinash Shanbhag • Director of Core Infrastructure Engineering

• John Speakman• caBIG Chief Program Officer

• David Hau M.D., M.S. • Acting Director, Semantic Infrastructure

• Robert Shirley • Associate Director of Applications Engineering; Project Office and

Technical Architect, Imaging workspace; Life Sciences Architect and the Project Officer for the LSLR effort

• Sherri De Coronado Ph.D., M.B.A.• Acting Director, Semantic Services

• Dianne Reeves, R.N., M.S.N.• Director, Biomedical Data Standards

NCI CBIIT Contractors Attending(non TBPT Team)

• R. Mark Adams, Ph.D.• caBIG Program Manager,

Booz Allen Hamilton• Michael Keller, Ph.D.

• Architecture Workspace Lead, Booz Allen Hamilton

• Elaine Freund, Ph.D.• ICR Workspace Lead, 3rd

Millennium, Inc.

• Eve Shalley, Ph.D.• Clinical Trials Management Systems

Workspace Lead, Essex Corporation

• Jens Poschet• Senior Manager, Essex Corporation

• Paul Mulhern, MSWImaging Workspace Lead, Booz Allen

Hamilton

Agenda Review – Wednesday Nov 3

• Welcome • Baylor College of Medicine Keynote Address: Dr. Paul

Klotman• Community Experience with Open-Source Tools and

caTissue Suite• Next Iteration of caTissue and NCI Enterprise Services• The Common Biorepository Model• Laboratory Data Sharing (LIDDEx)• Cross Workspace Projects• NCI Global Specimen Identifier Service• Evening Reception and Application Demonstration

Agenda Review – Thursday Nov 4

• Community Connecting caBIG to other Tools• Digital Pathology Imaging• caBIG Semantic Infrastructure• caBIG services Tooling and Benefits• Bioinformatics Support of Animal Model

Research: overview and working session• Closing Comments

Lunch Options

• Hotel Option: Hotel ZaZa Price Fixed Lunch Available. $18 per person including tax and tip

• Café Express: Located across the street from Hotel ZaZa on the lower level of the Museum of Fine Arts (corner of Bintz and Main)

• Hotel Restaurant: Monarch has a full service menu

Map of Attendee Locations:26 States and 4 Countries

• Arkansas• California• Colorado• Connecticut• Florida• Georgia• Hawaii• Illinois• Indiana• Kentucky• Louisiana• Massachusetts• Maryland• Maine• Minnesotta

• Missouri• North Carolina• New York• Oregon• Pennsylvania• Rhode Island• South Carolina• Texas• Virginia• Washington• Wisconsin• Leicestershire, UK• Maharashtra, India• New South Wales,

Australia• Ontario, Canada

Time Zones Covered by our Attendees

• 5 am in Honolulu = 10 AM in Houston = 2 AM tomorrow in Sydney, Australia

• 21 hour difference!

58 Affiliations

• 3rd Millennium, Inc • Albert Einstein College of Medicine • Artificial Intelligence In Medicine Inc. • Baylor College of Medicine • Booz Allen Hamilton • Brady Corporation Buckler Biomedical

Associates LLC • Cancer Research Center of Hawaii • City of Hope • Dana-Farber Cancer Institute • Duke University • Emory University • Epic Sciences • Essex Management • Hollings Cancer Center Medical University

of South Carolina • IMS • Indiana University/Regenstrief Institute • Johns Hopkins University• Kimmel Cancer Center at Thomas

Jefferson University• Leicester Cardiovascular Biomedical

Research Unit

• Loma Linda Cancer Center • Louisiana Cancer Research Consortium • Lowy Cancer Research Centre • MD Anderson • NCI CBIIT • Northside Hospital • Northwestern University • Norton Healthcare • NueroTexas Institute • Oregon Health Sciences University • Our Lady of the Lake • Persistent Systems Ltd • Regenstrief Institute • SAIC-Frederick • Saint Joseph Mercy Health System • Sapient Government Services• SemanticBits• Stanford University • Texas Children's Cancer Center• The Jackson Laboratory• Translating Research Across

Communities

• University of Arkansas Medical Sciences • University of California, Los Angeles • University of California, San Francisco • University of Colorado Denver• University of Florida • University of Hawaii • University of Houston Law Center• University of Leicester, UK• University of Maryland University of

Michigan University of Minnesota University of Pennsylvania

• University of Texas Health Science Center San Antonio

• University of Texas Medical Branch• University of Virginia • University of Washington • Washington University St. Louis • Yale University

Welcome address from Baylor College of Medicine

• Dr. Paul Klotman, President and CEO, Baylor College of Medicine

• B.S. degree from the University of Michigan• M.D. from Indiana University• Associate Professor of Medicine at Duke University• Chief of the Molecular Medicine Section in the Laboratory of

Developmental Biology at NIH. • Chief of the Viral Pathogenesis Laboratory in the NIDR/NIH.• Mt. Sinai School of Medicine as the Irene and Dr. Arthur M.

Fishberg Professor of Medicine and the chief of the Division of Nephrology. Chair of the Samuel Bronfman Department of Medicine.

• Baylor College of Medicine President July 2010!

Special Thanks to

• David Steffen, Ph.D., Director, Bioinformatics Research Center, Baylor College of Medicine

• Lauren Becnel Boyd, Ph.D., Dan L. Duncan Postdoctoral Fellow, Bioinformatics Research Center, Baylor College of Medicine

• Jennifer Hopkins, Dan L. Duncan Cancer Center, Conference Coordinator

caTissue Suite Usage Data

1

10

100

1000

10000

100000

1000000

6383

128798

469

1400039973

10198

288803

150

18910567644

236458

8204

1405

29276

164

6

7273

12

2200

100004472

281338

7849

215653

22

14616

50444

1813

558494

8570

Bio

sp

ec

ime

ns

Tra

ck

ed

in

ca

Tis

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Washington University St. Louis 558494 Loma Linda University 8204Fox Chase Cancer Center 288803 Ohio State University Medical Center 7273University of California San Francisco 281338 Christiana Care 5013Thomas Jefferson University - Kimmel Cancer Center 236458 University of Arkansas 4472University of Michigan 215653 University of Alabama Birmingham 2200Indiana University - Regenstrief 189105 Vanderbilt-Ingram Cancer Center 1813Dana Farber Cancer Center 128798 Georgetown University - Lombardi Cancer Center 1405Johns Hopkins University 67644 University of Arizona 1000University of Pittsburgh 50444 Baylor - Duncan Cancer Center 469Emory University 39973 M.D. Anderson Cancer Center 164Louisiana Cancer Consortium 29276 University of Iowa - Holden Cancer Center 150University of Pennsylvania 14616Edinburgh Experimental Cancer Medicine Center 14000University of Nebraska - Eppley Cancer Center 10198Yale 8570

Green = samples on the grid

Sample Use: Biospecimens

• Usage: 2.16+ million biospecimens available through caTissue, at least 1.56+ million biospecimens are available for sharing via caGrid

• 34 organizations in production usage, including:

Known Production and Pilot Instances

https://wiki.nci.nih.gov/display/TBPT/caTissue+Usage+Data+-+Production+and+Pilot+Known+Instances

Introductions

• Welcome All!

• Please provide your name, affiliation, and a short description of what you do and your interest in this meeting

Thank you for Attending!

• Join the caBIG TBPT Listserv to keep abreast of our workspace:

• CABIG_TBPT-L@LIST.NIH.GOV

• You may sign up through list.nih.gov