Enzymatic Degradation of Heparinlike Glycosaminoglycans

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Informatics in GlycomicsImplementation
Strategies at the Consortium for Functional
Glycomics
Rahul Raman Ph.D. Information and Bioinformatics
Core Consortium for Functional Glycomics (www.func
tionalglycomics.org)
Society for Glycobiology Annual Conference San
Diego (2003)
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Evolving framework for Informatics

• Pre-genomics Informatics
• Representing sequence and structure information
• Storing Information simple flat file databases
• Sequence Databases GenBank, SwissProt
• Structure Databases Protein Databank
• Post-genomics Informatics Proteomics, Glycomics
• Types of information
• Diverse Data sets from high throughput
  experiments Microarray, Mass spectroscopy
• Types of Databases
• Need for complex object-based relational
  databases to integrate the different data-sets
  and capture the relationships between them

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Consortium for Functional Glycomics
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Informatics Core
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Consortium Database Development Key Components
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Object based Relational DatabasesGlycan Binding
Protein (GBP)
GBP-Carbohydrate Interaction
Core H
Core C
PI
Biochemical pathway
Carbohydrate Ligand
Binding Data
GBP
Cell line
HIstology
Mouse Strain
Core F
cDNA sequence
Core C
Immunology
Yield
Core G
Core D
PI
Expression
Mouse Studies
PI
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Consortium Database Organization
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Molecule Page Components
Automated Acquisition Data from Public databases,
links to Public resources
Data from Cores Links to Resource and Data IDs
for viewing Consortium resources
PI entry Filling out fields as experts on the
molecule
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Informatics Core Organization
Information Technology Database, web, software
applications, user interface development M.
Venkataraman W. Lang S. Ramakrishnan E.
Berry and other IT members
Bioinformatics Scientific liaisons, User
specifications, Bioinformatics applications I.
Capila C. Kwan N.Kieser