2006 Catholic University Presentation

Explorations in bioinformatics

Division of Computational Biosciences

Douglas James Joubert, MLISBiomedical InformationistNational Institutes of Health Library

May 10, 2006

EXPLORATIONS IN BIOINFORMATICS

EXPLORATIONS IN BIOINFORMATICS

Bioinformatics is multi-faceted

EXPLORATIONS IN BIOINFORMATICS

Bioinformatics – My Approach

EXPLORATIONS IN BIOINFORMATICS

Bioinformatics – My Approach

Formal and informal educational opportunities

MS in bioinformatics NIH SIGs

ACM & IEEE SIGs AMIA Working Groups

EXPLORATIONS IN BIOINFORMATICS

Bioinformatics – My Approach

Formal and informal educational opportunities

MS in bioinformatics NIH SIGs

…Talk the talk

EXPLORATIONS IN BIOINFORMATICS

What is “Familiar” About MSCL – Informationist Collaboration

Primary role is data and text mining Evaluate resources - resources typically text

mining tools and database interfaces Conduct searches, subject terms are gene sets

and microarray probe IDs; methods of database access are unique

EXPLORATIONS IN BIOINFORMATICS

What is Unique About MSCL – Informationist Collaboration

MSCL does not use “library resources” in the traditional sense of the word

50% work commitment in lab Office space @ DCB, access to the NIH

mainframe through HELIX MSCL collaborative efforts are intermittent, and

project bound MSCL has been working with some core groups

for 5+ years

Primary Roles with MSL

SequenceAnalysis

Intermolecular &Biological Pathways

Data andText Mining

Genes &Proteins

SequenceAnalysis

Intermolecular &Biological Pathways

Data andText Mining

Genes &Proteins

Roles linked to a clear vision

MSCL DLS

EXPLORATIONS IN BIOINFORMATICS

What Tools do I use?

Use bioinformatics tools to explore modeled relationships between proteins, genes, complexes, cells, tissues, drugs, and diseases

Focus on information about gene function, metabolic, signaling, and canonical pathways

Sequence Analysis

subject terms

Sequence Analysis

EXPLORATIONS IN BIOINFORMATICS

Phylogenetic Analysis

Origins of a genetic disease

At sequence level looking for unique and non-unique characters

S. Wain-Hobson. (1998). 1959 and all that Nature 391: 531-532.

EXPLORATIONS IN BIOINFORMATICS

Protein Structure Analysis and Protein-Protein Interactions

Field of structural biology Moving from Sequence to

3-D modeling Good tutorial available at:

http://www.usm.maine.edu/~rhodes/SPVTut/

EXPLORATIONS IN BIOINFORMATICS

Pathway Analysis

EXPLORATIONS IN BIOINFORMATICS

Contact Information

Douglas J. Joubert, MLISBiomedical InformationistNational Institutes of Health LibraryBldg. 10, Room 1L09ABethesda, MD 20906-1150Phone: 301.594.6282E-mail: [email protected]: [email protected]