Proteomics

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Proteomics

• Laurie.Earls_at_Vanderbilt.edu

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Learning Objectives

• Define Proteomics
• What sorts of questions does proteomics answer?
• Some examples of proteomic techniques

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Perspective on Proteomics

• Genome
• Genomics
• Examples
• Microarray

• Proteome
• Proteomics
• Examples

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More is better

• There is only one genome
• There are multiple proteomes

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The old way of studying cell function
Early 1980s-Ras discovered
20 years later
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The Proteomics Way

• Compare all proteins in diseased vs. normal
  tissue
• Determine all proteins which bind to a certain
  target
• Determine all changes in proteins (ex
  phosphorylation) that occur in a particular state

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More fun vocabulary

• Bioinformatics http//us.expasy.org/prosite/
• Lipidomics

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What aspects of proteins can be studied in
massive scale?
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Proteomics is a beginning not an end
Complementary methods

• Binding partners Co-IP, GST-Pulldowns
• Modification state Phospho antibodies
• Localization IHC
• Expression levels Northern, Southern, RT-PCR,
  western
• Dont forget function!!!!!!!!!

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Mass Spectrometry
Resolved ions
ions
Source
Mass analyzer
detector
Ex TOF quadrupole Ion trap
Ex MALDI ESI

• For Proteomics, Need
• Sensitivity(can read peptides in femtomole
  quantities)
• Resolution(can distinguish w/similar masses(ie
  the difference in size of one H atom))
• Accuracy(Masses obtained are very close to
  actuality)

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How to interpret a Mass spectra
http//www.ionsource.com/tutorial/spectut/spec1.ht
m
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Further References
Ebook Introduction to Proteomics by Dan
Liebler http//www.netlibrary.com/ebook_info.as
p?product_id71291
Ebook Genomics and Proteomics by Suhai
Sandor http//www.netlibrary.com/ebook_info.asp?p
roduct_id67124