The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
ARED: human AU-rich element-containing mRNA database reveals an unexpectedly diverse functional repertoire of encoded proteins
Open accessAbstract
The adenylate uridylate-rich elements (AREs) mediate the rapid turnover of mRNAs encoding proteins that regulate cellular growth and body response to exogenous agents such as microbes, inflammatory and environmental stimuli. However, the full repertoire of ARE-containing mRNAs is unknown. Here, we explore the distribution of AREs in human mRNA sequences. Computational derivation of a 13-bp ARE pattern was performed using multiple expectation maximization for motif elicitations (MEME) and consensus analyses. This pattern was statistically validated for the specificity towards the 3'-untranslated region and not coding region. The computationally derived ARE pattern is the basis of a database which contains non-redundant full-length ARE-mRNAs. The ARE-mRNA database (ARED; http://rc.kfshrc.edu.sa/ared) reveals that ARE-mRNAs encode a wide repertoire of functionally diverse proteins that belong to different biological processes and are important in several disease states. Cluster analysis was performed using the ARE sequences to demonstrate potential relationships between the type and number of ARE motifs, and the functional characteristics of the proteins.
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Cites
AU-rich elements: characterization and importance in mRNA degradation
Chen, C.-Y. A., & Shyu, A.-B. (1995) · Trends in Biochemical Sciences · doi:10.1016/s0968-0004(00)89102-1 · Cited by 1,948
Pagès, G., Berra, E., Milanini, J., Levy, A. P., & Pouysségur, J. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.m002104200 · Cited by 184
Cited by
AU-rich elements and associated factors: are there unifying principles?
Barreau, C. (2005) · Nucleic Acids Research · doi:10.1093/nar/gki1012 · Cited by 907
AU Binding Proteins Recruit the Exosome to Degrade ARE-Containing mRNAs
Chen, C.-Y., Gherzi, R., Ong, S.-E., Chan, E. L., Raijmakers, R., Pruijn, G. J. M., Stoecklin, G., Moroni, C., Mann, M., & Karin, M. (2001) · Cell · doi:10.1016/s0092-8674(01)00578-5 · Cited by 865
AU-rich-element-mediated upregulation of translation by FXR1 and Argonaute 2
Vasudevan, S., & Steitz, J. A. (2007) · Cell · doi:10.1016/j.cell.2007.01.038 · Cited by 656
Sharova, L. V., Sharov, A. A., Nedorezov, T., Piao, Y., Shaik, N., & Ko, M. S. H. (2009) · DNA Research · doi:10.1093/dnares/dsn030 · Cited by 591
Diverse molecular functions of Hu proteins
Hinman, M. N., & Lou, H. (2008) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-008-8252-6 · Cited by 587
Metadata
- Authors
- Bakheet, T.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2001-01-01
- Volume
- 29
- Issue
- 1
- Pages
- 246-254
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2162563495
- Cited by
- 398
- References
- 2
- FWCI
- 9.01
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Bakheet, T. (2001). ARED: human AU-rich element-containing mRNA database reveals an unexpectedly diverse functional repertoire of encoded proteins. Nucleic Acids Research. https://doi.org/10.1093/nar/29.1.246
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