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Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays.

Publication ,  Journal Article
Tenenbaum, SA; Carson, CC; Lager, PJ; Keene, JD
Published in: Proc Natl Acad Sci U S A
December 19, 2000

Genomic array technologies provide a means for profiling global changes in gene expression under a variety of conditions. However, it has been difficult to assess whether transcriptional or posttranscriptional regulation is responsible for these changes. Additionally, fluctuations in gene expression in a single cell type within a complex tissue like a tumor may be masked by overlapping profiles of all cell types in the population. In this paper, we describe the use of cDNA arrays to identify subsets of mRNAs contained in endogenous messenger ribonucleoprotein complexes (mRNPs) that are cell type specific. We identified mRNA subsets from P19 embryonal carcinoma stem cells by using mRNA-binding proteins HuB, eIF-4E, and PABP that are known to play a role in translation. The mRNA profiles associated with each of these mRNPs were unique and represented gene clusters that differed from total cellular RNA. Additionally, the composition of mRNAs detected in HuB-mRNP complexes changed dramatically after induction of neuronal differentiation with retinoic acid. We suggest that the association of structurally related mRNAs into mRNP complexes is dynamic and may help regulate posttranscriptional events such as mRNA turnover and translation. Recovering proteins specifically associated with mRNP complexes to identify and profile endogenously clustered mRNAs should provide insight into structural and functional relationships among gene transcripts and/or their protein products. We have termed this approach to functional genomics ribonomics and suggest that it will provide a useful paradigm for organizing genomic information in a biologically relevant manner.

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Published In

Proc Natl Acad Sci U S A

DOI

ISSN

0027-8424

Publication Date

December 19, 2000

Volume

97

Issue

26

Start / End Page

14085 / 14090

Location

United States

Related Subject Headings

  • Tumor Cells, Cultured
  • Tretinoin
  • Ribonucleoproteins
  • RNA-Binding Proteins
  • RNA, Messenger
  • Poly(A)-Binding Proteins
  • Peptide Initiation Factors
  • Oligonucleotide Array Sequence Analysis
  • Nerve Tissue Proteins
  • Mice
 

Citation

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Tenenbaum, S. A., Carson, C. C., Lager, P. J., & Keene, J. D. (2000). Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays. Proc Natl Acad Sci U S A, 97(26), 14085–14090. https://doi.org/10.1073/pnas.97.26.14085
Tenenbaum, S. A., C. C. Carson, P. J. Lager, and J. D. Keene. “Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays.Proc Natl Acad Sci U S A 97, no. 26 (December 19, 2000): 14085–90. https://doi.org/10.1073/pnas.97.26.14085.
Tenenbaum SA, Carson CC, Lager PJ, Keene JD. Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays. Proc Natl Acad Sci U S A. 2000 Dec 19;97(26):14085–90.
Tenenbaum, S. A., et al. “Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays.Proc Natl Acad Sci U S A, vol. 97, no. 26, Dec. 2000, pp. 14085–90. Pubmed, doi:10.1073/pnas.97.26.14085.
Tenenbaum SA, Carson CC, Lager PJ, Keene JD. Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays. Proc Natl Acad Sci U S A. 2000 Dec 19;97(26):14085–14090.
Journal cover image

Published In

Proc Natl Acad Sci U S A

DOI

ISSN

0027-8424

Publication Date

December 19, 2000

Volume

97

Issue

26

Start / End Page

14085 / 14090

Location

United States

Related Subject Headings

  • Tumor Cells, Cultured
  • Tretinoin
  • Ribonucleoproteins
  • RNA-Binding Proteins
  • RNA, Messenger
  • Poly(A)-Binding Proteins
  • Peptide Initiation Factors
  • Oligonucleotide Array Sequence Analysis
  • Nerve Tissue Proteins
  • Mice