2006 Catholic University Presentation

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Working with bioinformatics research teams

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2006 Catholic University Presentation

  1. 1. Explorations in bioinformatics Division of Computational Biosciences Douglas James Joubert, MLIS Biomedical Informationist National Institutes of Health Library May 10, 2006
  2. 3. Bioinformatics is multi-faceted
  3. 4. Bioinformatics – My Approach
  4. 5. Bioinformatics – My Approach <ul><li>Formal and informal educational opportunities </li></ul><ul><li>MS in bioinformatics </li></ul><ul><li>NIH SIGs </li></ul><ul><li>ACM & IEEE SIGs </li></ul><ul><li>AMIA Working Groups </li></ul>
  5. 6. Bioinformatics – My Approach <ul><li>Formal and informal educational opportunities </li></ul><ul><li>MS in bioinformatics </li></ul><ul><li>NIH SIGs </li></ul>… Talk the talk
  6. 7. What is “Familiar” About MSCL – Informationist Collaboration <ul><li>Primary role is data and text mining </li></ul><ul><li>Evaluate resources - resources typically text mining tools and database interfaces </li></ul><ul><li>Conduct searches, subject terms are gene sets and microarray probe IDs; methods of database access are unique </li></ul>
  7. 8. What is Unique About MSCL – Informationist Collaboration <ul><li>MSCL does not use “library resources” in the traditional sense of the word </li></ul><ul><li>50% work commitment in lab </li></ul><ul><li>Office space @ DCB, access to the NIH mainframe through HELIX </li></ul><ul><li>MSCL collaborative efforts are intermittent, and project bound </li></ul><ul><li>MSCL has been working with some core groups for 5+ years </li></ul>
  8. 9. Primary Roles with MSL Genes & Proteins Sequence Analysis Intermolecular & Biological Pathways Data and Text Mining
  9. 10. Genes & Proteins Roles linked to a clear vision MSCL DLS Sequence Analysis Intermolecular & Biological Pathways Data and Text Mining
  10. 11. What Tools do I use? <ul><li>Use bioinformatics tools to explore modeled relationships between proteins, genes, complexes, cells, tissues, drugs, and diseases </li></ul><ul><li>Focus on information about gene function, metabolic, signaling, and canonical pathways </li></ul>
  11. 12. Sequence Analysis
  12. 13. subject terms Sequence Analysis
  13. 14. Phylogenetic Analysis <ul><li>Origins of a genetic disease </li></ul><ul><li>At sequence level looking for unique and non-unique characters </li></ul>S. Wain-Hobson. (1998). 1959 and all that Nature 391: 531-532.
  14. 15. Protein Structure Analysis and Protein-Protein Interactions <ul><li>Field of structural biology </li></ul><ul><li>Moving from Sequence to 3-D modeling </li></ul><ul><li>Good tutorial available at: http://www.usm.maine.edu/~rhodes/SPVTut/ </li></ul>
  15. 16. Pathway Analysis
  16. 17. Contact Information <ul><li>Douglas J. Joubert, MLIS </li></ul><ul><li>Biomedical Informationist </li></ul><ul><li>National Institutes of Health Library </li></ul><ul><li>Bldg. 10, Room 1L09A </li></ul><ul><li>Bethesda, MD 20906-1150 </li></ul><ul><li>Phone: 301.594.6282 </li></ul><ul><li>E-mail: joubertd@ors.od.nih.gov </li></ul><ul><li>E-mail: joubertd@helix.nih.gov </li></ul>

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