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Biomedical Informatics: use of information technology and advanced research computing in the practice of biomedical sciences and medicine

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Biomedical Informatics: use of information technology and advanced research ... Dave Ervin. Shannon Hastings. Tahsin Kurc. Stephen Langella. Scott Oster. Joel Saltz ... – PowerPoint PPT presentation

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Title: Biomedical Informatics: use of information technology and advanced research computing in the practice of biomedical sciences and medicine


1
Biomedical Informaticsuse of information
technology and advanced research computing in the
practice of biomedical sciences and medicine
(wikipedia)
  • Joel Saltz MD, PhD
  • Chair Department of Biomedical Informatics
  • The Ohio State University College of Medicine

2
Transcontinental Railway The Golden Spike -
Triumph of Standards
3
Major Break-of-GaugeTransiberian, Manchurian
Railroad
  • Cant always standardize
  • Optimize transfer
  • Adapt trains
  • Move cargo
  • Time consuming, expensive
  • Can be automated

4
Translation Same ideas, different words
5
Biomedical Informatics and Middleware
Translates and Integrates Information
Disseminates Information
Brings in Information
6
caBIG Application community led effort
  • caGrid octopus for caBIG
  • OSU-led project
  • Ohio State/Rescentris Bioinformatics BRTT laid
    groundwork

7
caGrid
  • Grid Infrastructure for caBIG
  • caGrid Components
  • Grid Service Graphical Development Toolkit
    (Introduce)
  • Metadata
  • Advertisement and Discovery
  • Semantic Services
  • Workflow
  • Security

8
caGrid 1.0 Security
  • Authentication
  • Process of determining whether someone or
    something is, in fact, who or what it is declared
    to be.
  • http//en.wikipedia.org/wiki/Authentication
  • Authorization
  • Process of determining if an authenticated user
    may do something on a given resource.
  • Can User X perform Operation Y on Resource Z?
  • http//en.wikipedia.org/wiki/Authorization
  • Trust Management
  • Supports applications and services in deciding
    whether or not signers of digital
    credentials/user attributes can be trusted.
  • Secure Communication
  • The ability to guarantee the integrity and/or
    privacy of messages between two parties

9
9
10
System Architecture - Virtual PACS
11
GridIMAGE
  • Query heterogeneous set of DICOM, SQL or caGrid
    data services
  • Select images based on search criteria
  • Send images to human reviewer
  • Send images to algorithm for CAD or change
    detection

12
Ongoing Testbed Cooperative Group Collaborations
  • ACRIN
  • QARC
  • ATC
  • RTOG
  • CALGB
  • COG
  • NCIA

13
Middleware High Resolution 3-D Tissue
Reconstruction
14
Woody Hayes Success - it's what you do with
what you've got.
15
Thanks!
16
caGrid Team
  • Ohio State University - Department of BioMedical
    Informatics (http//bmi.osu.edu/)
  • Dave Ervin
  • Shannon Hastings
  • Tahsin Kurc
  • Stephen Langella
  • Scott Oster
  • Joel Saltz
  • Argonne National Lab / University of
    Chicago(http//www.globus.org)
  • William Allcock
  • Jarek Gawor
  • Ravi Madduri
  • Frank Siebenlist
  • Michael Wilde
  • Duke University
  • A. Jamie Cuticchia
  • Patrick McConnell
  • Georgetown University
  • Colin Freas
  • Paul A. Kennedy
  • Chad La Joie
  • SAIC (http//www.saic.com)
  • Manav Kher
  • Booz Allen Hamilton (http//www.bah.com)
  • Arumani Manisundaram
  • Michael Keller
  • Reechik Chatterjee

17
gridCAD Team
  • Tony Pan, Joel Saltz, Tahsin Kurc, Stephen
    Langella,
  • Shannon Hastings, Scott Oster, Ashish Sharma,
    Metin Gurcan
  • Department of Biomedical Informatics
  • The Ohio State University Medical Center,
    Columbus OH
  • Eliot Siegel, Khan M. Siddiqui
  • University of Maryland School of Medicine,
    Baltimore, MD

For more information, please contact Tony Pan
(tpan_at_bmi.osu.edu) Dept. of Biomedical
Informatics, The Ohio State University
http//bmi.osu.edu
18
Microscopy Image Analysis
  • Human Cancer Genetics
  • Pamela Wenzel
  • Dr. Gustavo Leone
  • Dr. Alain deBruin
  • Dr. Tony Trimboli
  • Jana Opavska
  • Biomedical Informatics
  • Tony Pan
  • Alexandra Gulacy
  • Dr. Metin Gurcan
  • Dr. Ashish Sharma
  • Dr. Kun Huang
  • Dr. Joel Saltz
  • Computer Science and Engineering
  • Raghu Machiraju
  • Kishore Mosaliganti
  • Randall Ridgway
  • Richard Sharp
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