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Science Collaboration Framework: Interoperable platform for scientists to network and exchange knowl

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Cloud Computing and Collaborative Technologies in the Geosciences, ... Agaric Design. Ben Melancon. HSCI. Lisa Girard. Maureen Lyons. Brock Reeve. NeuroCommons ... – PowerPoint PPT presentation

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Title: Science Collaboration Framework: Interoperable platform for scientists to network and exchange knowl


1
Science Collaboration Framework Interoperable
platform for scientists to network and exchange
knowledge
  • Cloud Computing and Collaborative Technologies in
    the Geosciences, Indianapolis, IN
  • Sudeshna Das
  • Harvard Medical School, Mass General Hospital
  • Sep 17, 2009

2
Content
  • Emergence of new trends
  • Science Collaboration Framework
  • Case Study
  • Alzforum
  • StemBook
  • PDOnline

3
Emergence of new trends
  • Knowledge exchange is happening on the Web
  • Studies show that use of print journals is
    declining
  • Web 2.0 social networking sites, scientific
    social communities
  • Web 3.0 data, information, knowledge exchange
  • S. L. De Groote, J. L. Dorsch, Measuring use
    patterns of online journals and databases. J Med
    Libr Assoc. 2003 April 91(2) 231241.
  • Free Market Science. Nat Cell Biol. 2007 Jul
    9(7)721.

4
Knowledge cycle
run experiment
collect data
design experiment
Interpret data
share interpretations
create hypothesis
synthesize knowledge
5
Scientific communities
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Accelerating Research
  • Share discuss new research findings
  • Open access to shared data
  • Hypothesis development and challenge
  • Catalyze powerful collaborations
  • Create useful knowledge bases

9
Alzforum The Pioneer in Biomedical Web
Communities
10
Can we reliably replicate a web community model
with a common toolkit? Can we link the
resulting communities in a significant way to
share knowledge?
11
Linked biomedical web communities
12
Requirements
  • Common software toolkits
  • Shared terminology systems
  • Open linked data

13
Problem Statement
Reusable software
Shared terminology
Web 3.0
Linked open data sources
14
DRUPAL
  • Open source content management system
  • Modular, open, free
  • Thousands of developers
  • Hundreds of thousands of Drupal websites
  • SCF builds upon the basic Drupal modules

15
What is the SCF?
  • Science Collaboration Framework
  • Reusable infrastructure for scientific publishing
    and building biomedical web communities
  • Based on Drupal
  • low barrier to entry
  • Integrated Collaborative tools
  • Web 2.0
  • Adapted to the Semantic Web
  • Leverages existing linked data
  • Uses shared ontologies/vocabularies
  • Interoperable with other SCF or Semantic Web
    communities
  • Designed with emphasis on usability and usefulness

16
SCF Overview
17
StemBook www.stembook.org
18
StemBook
  • Online, open access, review of stem cell biology
  • Collaborative effort with HSCI
  • Lisa Girard PhD (editor)
  • Editorial review
  • 14 Harvard-affiliated stem cell experts and 13
    non-Harvard
  • Launched in Sep 2008
  • 39 articles and 89 commissioned in 12 sections
  • 40,000 unique visitors
  • 150 visitors/day

19
Content developed by the Stem Cell Research
Community
  • Original, invited review chapters
  • Approximately 200 authors worldwide
  • Over 100 reviewers
  • International editorial board - leaders in field
  • Now indexed by National Library of Medicine

20
Example StemBook
21
Example StemBook
22
Example StemBook
23
Example StemBook
24
Example StemBook
25
Example Article
26
Example Article
27
PDOnline Home
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35
Team
  • IIC
  • Software Engineer
  • Tom Green
  • Mark Goetz
  • Stéphane Corlosquet
  • Alister Lewis-Bowen
  • Louis Weitzman
  • Project Management
  • Sudeshna Das
  • Tim Clark
  • Agaric Design
  • Ben Melancon
  • HSCI
  • Lisa Girard
  • Maureen Lyons
  • Brock Reeve
  • NeuroCommons
  • Alan Ruttenberg
  • Jonathan Rees
  • Alzforum
  • June Kinoshita
  • Elizabeth Wu
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