KNOWME KNOWledgeMapExplorer Semantic Browsing of Integrated Data using Knowledge Maps

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KNOW-ME (KNOWledge-Map-Explorer)Semantic
Browsing of Integrated Data using Knowledge Maps

• Knowledge Map
• A domain map representing terminological
  knowledge about experimental data
• A process map representing knowledge of
  state-transitions about temporal phenomena
• Links between them

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KNOW-ME Features

• Query Capabilities
• For Concept Maps
• find paths having nodes (N1, ..Nk) and avoiding
  nodes (N?1, ..N ?m)
• For Process Maps (STNs)
• transition types and parameters
• precondition-postcondition descriptions
• traversing level of details elaborations and
  abstractions
• For bridges across concept maps and process maps
• locate a concept satisfying ltcondition1gt
  associated with some process which exhibits a
  state transition satisfying ltcondition2gt

elaborate
abstract
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KNOW-ME Architecture
WebDot Graph Layout
(dakswebdot.sdsc.edu)
JSP
Java Bean
Tomcat Servlet/JSP Engine
KNOW-ME Query Engine
KNOW-ME Web-Browser (anywhere)
(pamina2.sdsc.edu)
Oracle DB
NCMIR CCDB
ANATOM Process Maps Domain Maps
(birn.sdsc.edu)
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KNOW-ME w/ Domain Map
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KNOW-ME w/ Process Map
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KNOW-ME Result Graph
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KNOW-ME Result Data
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Summary KNOW-ME Features

• Semantic Browsing of Data
• Data about a concept
• All electromicrographs of spiny dendrites
• Data about a process
• All electrode recordings that show
  long-term-potentiation
• Data that is evidence of a process
• All electromicrographs that suggest synapse
  generation occurs during LTP

Xufei Qian, Bertram Ludäscher, Maryann E.
Martone, Amarnath GuptaSan Diego Supercomputer
Center Department of Neurosciences University
of California, San Diego
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Some Related References Mediation of
Neuroscience Data

• Model-Based Mediation with Domain Maps, B.
  Ludäscher, A. Gupta, M. E. Martone, 17th Intl.
  Conference on Data Engineering (ICDE),
  Heidelberg, Germany, IEEE Computer Society, April
  2001.
• Navigating Virtual Information Sources with
  Know-ME, X. Qian, B. Ludäscher, M. E. Martone, A.
  Gupta, demonstration track, Intl. Conference on
  Extending Database Technology (EDBT), Prague,
  Czech Republic, March 2002.
• Model-Based Information Integration in a
  Neuroscience Mediator System, B. Ludäscher, A.
  Gupta, M. E. Martone, demonstration track, 26th
  Intl. Conference on Very Large Databases (VLDB),
  Cairo, Egypt, September 2000.
• Knowledge-Based Integration of Neuroscience Data
  Sources, A. Gupta, B. Ludäscher, M. E. Martone,
  12th Intl. Conference on Scientific and
  Statistical Database Management (SSDBM), Berlin,
  Germany, IEEE Computer Society, July 2000.
• A Cell-Centered Database for Electron Tomographic
  Data, M. E. Martone, A. Gupta, M. Wong, X. Qian,
  G. Sosinsky, S. Lamont, B. Ludäscher , and M. H.
  Ellisman. Journal of Structural Biology, 2002. to
  appear