an extensible model-based mediator system with domain maps
DESCRIPTION
An Extensible Model-Based Mediator System with Domain Maps. Amarnath Gupta * Bertram Ludäscher * Maryann E. Martone +. * San Diego Supercomputer Center (SDSC) + National Center for Microscopy and Imaging Research (NCMIR) University of California, San Diego (UCSD). - PowerPoint PPT PresentationTRANSCRIPT
An Extensible Model-Based Mediator System with Domain Maps
Amarnath Gupta*
Bertram Ludäscher*
Maryann E. Martone+
*San Diego Supercomputer Center (SDSC)+National Center for Microscopy and Imaging Research (NCMIR)
University of California, San Diego (UCSD)
Federation of Brain Data using Model-Based Medition
CCB, Montana SUSurface atlas, Van Essen
Lab
NCMIR, UCSDstereotaxic atlas LONI
MCell, CNL, Salk
ANATOM
PROTLOC
Result (VML)
Result (XML/XSLT)
MODEL-BASED Mediation
The Need for Semantic Integration
protein localization
What is the cerebellar distribution of rat proteins with more than 70% homology with human NCS-1? Any structure specificity?
How about other rodents?
morphometry neurotransmission
???Mediator ??????Mediator ???
Web
CaBP, Expasy
Wrapper WrapperWrapper Wrapper
??? Integrated View ???
??? Integrated View Definition ???
Data, relationships,
constraints are modeled (CMs)
Cross-source relationships are
modeled
Semantic (knowledge-
based) mediation services
Cross-source queries
XML-Based vs. Model-Based Mediation
Raw DataRaw DataRaw Data
IF THEN IF THEN IF THEN
LogicalDomainConstraints
Integrated-CM :=
CM-QL(Src1-CM,...)
. . ....
....
........ (XML)Objects
Conceptual Models
XMLElements
XML Models
C2 C3
C1
R
Classes,Relations,is-a, has-a, ...
DOMAIN MAP
Integrated-DTD :=
XML-QL(Src1-DTD,...)
No DomainConstraints
A = (B*|C),DB = ...
Structural Constraints (DTDs),Parent, Child, Sibling, ...
CM ~ {Descr.Logic, ER, UML, RDF/XML(-Schema), …} CM-QL ~ {F-Logic, OIL, DAML, …}
Model-Based Mediation with DOMAIN MAPS (DMs)
Integrated-CM(Z1,...) := get X1,... from Src1;
get X2,... from Src2;LINK (Xi, Yj);Zj = CM-QL(X1,...,Y1,...)
LINK(X,Y):
X.zip = Y.zip
X.addr in Y.zipX.zip overlaps Y.county...
• “Semantic Road Maps” for situating source data
=> navigational aid (browsing source classes at the conceptual level)
=> basis for integrated views across multiple worlds
=> link points (concepts) and labeled arcs (roles)
=> formal semantics (in FL and/or DLs)
Example: ANATOM DM
= antatomical entities (concepts) + is_a, has_a, overlaps, ... (roles)
=> from syntactic equality to semantic joins
ANATOM Domain Map
Query Processing
Integrated View DefinitionDERIVEprotein_distribution(Protein, Organism, Brain_region, Feature_name,
Anatom, Value) FROM I:protein_label_image[ proteins ->> {Protein}; organism -> Organism;
anatomical_structures ->>{AS:anatomical_structure[name->Anatom]}] , % from
PROLAB
NAE:neuro_anatomic_entity[name->Anatom; % from ANATOM located_in->>{Brain_region}], AS..segments..features[name->Feature_name; value->Value].
• provided by the domain expert and mediation engineer• declarative language (here: F-logic)
Client-Side Result Visualization(using AxioMap Viewer: Ilya Zaslavsky)
PROTLOC-AxioMap
Model-Based Mediator Prototype
USER/ClientUSER/Client
S1 S2
S3
XML-Wrapper
CM-Wrapper
XML-Wrapper
CM-Wrapper
XML-Wrapper
CM-Wrapper
GCM
CM S1
GCM
CM S2
GCM
CM S3
CM (Integrated View)
MediatorEngine
FL rule proc.
LP rule proc.
Graph proc.XSB Engine
Domain MapDM
Integrated View Definition IVD
Logic API(capabilities)
CM Queries & Results (exchanged in XML)
CM Plug-In
Mediation Services: Semantic Annotation Toolsline drawing =annotate=> (spatial) DB for mediation