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Nucleic Acids Research Advance Access published online on November 4, 2007
Nucleic Acids Research, doi:10.1093/nar/gkm959
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

ARED Organism: expansion of ARED reveals AU-rich element cluster variations between human and mouse

Anason S. Halees, Rashad El-Badrawi and Khalid S. A. Khabar*

The Biomolecular Research Program, King Faisal Specialist Hospital and Research Center, Riyadh 11211, Saudi Arabia

*To whom correspondence should be addressed. Tel: +1 966 1 442 7876; Fax: +1 966 1 442 7858; Email: khabar{at}kfshrc.edu.sa

Received September 18, 2007. Revised October 14, 2007. Accepted October 15, 2007.

ARED Organism represents the expansion of the adenylate uridylate (AU)-rich element (ARE)-containing human mRNA database into the transcriptomes of mouse and rat. As a result, we performed quantitative assessment of ARE conservation in human, mouse and rat transcripts. We found that a significant proportion (~25%) of human genes differ in their ARE patterns from mouse and rat transcripts. ARED-Integrated, another updated and expanded version of ARED, is a compilation of ARED versions 1.0 to 3.0 and updated version 4.0 that is devoted to human mRNAs. Thus, ARED-Integrated and ARED-Organism databases, both publicly available at http://brp.kfshrc.edu.sa/ARED, offer scientists a comprehensive view of AREs in the human transcriptome and the ability to study the comparative genomics of AREs in model organisms. This ultimately will help in inferring the biological consequences of ARE variation in these key animal models as opposed to humans, particularly, in relationships to the role of RNA stability in disease.


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