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Protein pathway and complex clustering of correlated mRNA and protein expression analyses in Saccharomyces cerevisiae

Academic Article
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Overview

authors

  • Washburn, M. P.
  • Koller, A.
  • Oshiro, G.
  • Ulaszek, R. R.
  • Plouffe, D.
  • Deciu, C.
  • Winzeler, Elizabeth
  • Yates III, John

publication date

  • March 2003

journal

  • Proceedings of the National Academy of Sciences of the United States of America  Journal

abstract

  • The mRNA and protein expression in Saccharomyces cerevisiae cultured in rich or minimal media was analyzed by oligonucleotide arrays and quantitative multidimensional protein identification technology. The overall correlation between mRNA and protein expression was weakly positive with a Spearman rank correlation coefficient of 0.45 for 678 loci. To place the data sets in a proper biological context, a clustering approach based on protein pathways and protein complexes was implemented. Protein expression levels were transcriptionally controlled for not only single loci but for entire protein pathways (e.g., Met, Arg, and Leu biosynthetic pathways). In contrast, the protein expression of loci in several protein complexes (e.g., SPT, COPI, and ribosome) was posttranscriptionally controlled. The coupling of the methods described provided insight into the biology of S. cerevisiae and a clustering strategy by which future studies should be based.

subject areas

  • Amino Acid Sequence
  • Cluster Analysis
  • Data Interpretation, Statistical
  • Gene Expression Profiling
  • Genes, Fungal
  • Molecular Sequence Data
  • Oligonucleotide Array Sequence Analysis
  • Peptides
  • Protein Array Analysis
  • RNA, Fungal
  • RNA, Messenger
  • Saccharomyces cerevisiae
  • Saccharomyces cerevisiae Proteins
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Identity

PubMed Central ID

  • PMC152254

International Standard Serial Number (ISSN)

  • 0027-8424

Digital Object Identifier (DOI)

  • 10.1073/pnas.0634629100

PubMed ID

  • 12626741
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Additional Document Info

start page

  • 3107

end page

  • 3112

volume

  • 100

issue

  • 6

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