ncbo driving biological project

NCBO Driving Biological Project

Ontology-Based Annotation of Biomedical Time-Series

DataRai Winslow & Steve Granite

Last update October 2008

Motivating ProblemMotivating Problem

CardioVascular Research Grid:

Data Services

CardioVascular Research Grid:

Data Services

CVRG Dashboard

Developed by CVRG

Developed by NCI-caBIG

Other Open Source

ProteomicsData Service

PACS (DCM4CHEE),DICOM DataService

ECG DataService

Study Data Service(OpenClinica)

mRNAExpressionData Service

SNP/GWASData Service Other CVRG Nodes

CardioVascular Research Grid:

Analysis Services

CardioVascular Research Grid:

Analysis Services

Heart Shape & Motion Analyses(LDDMM, PTA)

Machine Learning;Rweb, geWorkbench

ECG AnalysisServices

Other CVRG Nodes

CVRG DashboardWorkflow Access

Current CVRG ArchitectureCurrent CVRG Architecture

Apache Axis 2 Web ServicesApache Axis 2 Web Services

Google Web Toolkit & Visualization APIGoogle Web Toolkit & Visualization APILibrariesLibraries

Gadget/Google DashboardGadget/Google Dashboard

Web BrowserWeb Browser

User InterfaceUser InterfaceLayerLayer

MiddlewareMiddlewareLayerLayer

Data LayerData Layer Open-source Databases, XML & Open-source Databases, XML & File SystemsFile Systems

Globus Grid Toolkit 4.xGlobus Grid Toolkit 4.x

caGrid ArchitecturecaGrid Architecture

Prior and New ResultsPrior and New Results

ECG Ontology - DevelopmentECG Ontology - Development

1Writing Committee for Electrophysiology Clinical Data Standards (2006). Circulation 114: 25341Writing Committee for Electrophysiology Clinical Data Standards (2006). Circulation 114: 2534

ECG Ontology - Where We AreECG Ontology - Where We AreAA BB

CC

NCBORetrieverNCBORetriever

NCBORetriever DemonstrationNCBORetriever Demonstration

CVRG DashboardCVRG Dashboard

CVRG ECG Gadget & DashboardCVRG ECG Gadget & Dashboard

• Dashboard- Accessible from anywhere with a web browser

- More user control over components than web portal

- Interface for Federated Querying, integrating Clinical, ECG and Imaging data

• Gadget- Lightweight - 200 MBs software

- “Load and Go” and you are a CVRG node

- Cross-platform compatibility

- Ability to run on a G3 phone

• Dashboard- Accessible from anywhere with a web browser

- More user control over components than web portal

- Interface for Federated Querying, integrating Clinical, ECG and Imaging data

• Gadget- Lightweight - 200 MBs software

- “Load and Go” and you are a CVRG node

- Cross-platform compatibility

- Ability to run on a G3 phone

Demo - ECG GadgetDemo - ECG Gadget

Future WorkFuture Work

• Continue ontology development, more extensive testing- Conducting expert review now

• Enhance ECG gadget- better term search capabilities

- easier method for selecting annotation time location

• Integrate gadgets into CVRG dashboard

• Advertise to the community- target entire AHA Clinical & Basic Research Councils

• Collaborative Protege

• Continue ontology development, more extensive testing- Conducting expert review now

• Enhance ECG gadget- better term search capabilities

- easier method for selecting annotation time location

• Integrate gadgets into CVRG dashboard

• Advertise to the community- target entire AHA Clinical & Basic Research Councils

• Collaborative Protege