AM Session: NCICB caCore Technologies
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Technology
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Time
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Presenters
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Description
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Download
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Introduction
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9:00-9:25
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Dr. Ken Buetow
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The NCI Center for Bioinformatics (NCICB) provides
bioinformatics support and integration of NCI’s diverse research
initiatives. Introductory remarks and
an overview of the NCICB will be presented.
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Introduction Presentation
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caCORE
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9:25-9:50
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Dr. Peter Covitz
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caCORE is the foundation upon which the NCI builds
its research information management systems.The integration and overall direction of caCORE will be discussed.
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caCORE Presentation
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caBIO
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9:50-10:15
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Sharon Settnek/
Himanso Sahni
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The cancer Bioinformatics Infrastructure Objects
(caBIO) model and architecture
is at the heart of caCORE.caBIO was initiated to provide
programmatic access to information at several NCI projects as well as
publicly available data sources.An
overview of caBIO usage, BIOretriever, and future enhancements (caBIO Kernel)
will be provided.
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caBIO Presentation
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EVS
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10:15-10:40
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Frank Hartel
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Enterprise Vocabulary Services (EVS) facilitate
common vocabulary amongst diverse life sciences initiatives.These services, which consist of a myriad
of tools for concept submission and retrieval, are instrumental in successful
data integration.Usage of the EVS
services and future direction will be discussed.
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EVS Presentation
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Break
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10:40-10:55
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caDSR Tools
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10:55-11:20
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Denise Warzel
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There are a variety of caDSR tools for browsing
common data elements and validating case report forms.Tools for common data element development
and deployment will be addressed.
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caDSR Tools Presentation
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CaDSR Database/ Oracle Clinical
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11:20-11:45
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Christo Andonyadis
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The cancer Data Standards Repository (caDSR) is a
database and tool set that
the NCI and its partners use to create, edit and
deploy common data elements.The
caDSR database and integration with Oracle Clinical will be presented.
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caDSR Presentation
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Lunch
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11:45-1:00
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PM Session:NCICB Projects
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Technology
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Time
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Presenters
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Description
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Download
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CGAP/CMAP
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1:00-1:35
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Carl Schaeffer
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The goal of the Cancer Genome Anatomy Project is to
correlate gene expression, genetic polymorphism, and chromosome abnormalities
with cell morphology and topography. The CGAP database and web site has tools
for browsing cDNA and SAGE libraries, analyzing gene expression by tissue and
histology, querying gene function, and finding recurrent chromosome
aberrations in cancer.
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CGAP/CMAP Presentation
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GAI
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1:35-2:05
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Michael Edmonson/Bob Clifford
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The CGAP Genetic Annotation Initiative identifies
single nucleotide polymorphisms from publicly available EST sequencing traces.
The GAI provides a variety of web-based tools for viewing information about
SNPs.These include: search engines
for selecting SNPs by gene name, keyword, or chromosomal location; a viewer
for displaying SNPs in the context of sequence assemblies; and tools for
viewing SNPs in the context of transcripts, open reading frames and protein
motifs.
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Affymetrix/BioCarta Comparison Presentation
GAI Presentation
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Break
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2:05-2:20
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GEDP
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2:20-2:45
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Scott Melby
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The Gene Expression Data Portal (GEDP) is an
on-going effort to provide database support and access to microarray data.
The effort also includes evaluating and developing micoarray analysis tools
and industry standards (e.g. MAGEML).Preiminary object and data models based upon the MAGEML standard have
been developed.An overview of the
GEDP and MAGE-OM API will be presented along with XpressionWay, an analysis
tool for analyzing expression data via visual cellular pathway diagrams.
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GEDP Presentation
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caMDB and caIMAGE
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2:45-3:15
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Johnita Beasley
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The cancer Models Database (caMDB) allows
researchers to submit and retrieve animal models of cancer.The caMDB interfaces with caIMAGE, the
cancer Image repository containing human and mouse pathological images. An overview of the caMDB and supporting
APIs, as well as caIMAGE will be provided.
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caMDB/caIMAGE Presentation
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SPOREs
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3:15-3:40
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Quinyan Pan and Ryan Landy
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The NCI Specialized Programs of Research Excellence
(SPOREs) was established to promote interdisciplinary research and speed the
bi-directional exchange between basic and clinical science.NCICB Technologies supporting the SPOREs
including a clinical protocols portal will be discussed.
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SPORE's Presentation
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Web/Portal Development
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3:40-4:05
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Clint Malone/ Kevin Rosso/Asoka Devadas
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The NCICB hosts a variety of web sites supporting
NCI consortium and NCICB initiatives.An overview of the NCICB static and dynamic web development and
security using the Lightweight Directory Access Protocol (LDAP) will be
discussed.
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Web Presentation
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Architecture
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4:05-4:30
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Bill Britton
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The NCICB architecture consists of a variety of
high-powered performance driven equipment and infrastructure components
supporting the centers bioinformatics programs. The current NCICB architecture and future enhancements will be
presented.
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Systems Architecture Presentation
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