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Vol 13, Issue 1, 1-12, January 2003

REVIEW

Cross-Species Sequence Comparisons: A Review of Methods and Available Resources

Kelly A. Frazer1,6, Laura Elnitski2,3, Deanna M. Church4, Inna Dubchak5 and Ross C. Hardison3

1Perlegen Sciences, Mountain View, California 94043, USA;2 Department of Computer Science and Engineering and3 Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, Pennsylvania 16802, USA; 4National Institutes of Health, National Library Of Medicine, National Center for Biotechnology Information, Bethesda, Maryland 20894, USA; 5Genome Sciences Department, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA

ABSTRACT

With the availability of whole-genome sequences for an increasing number of species, we are now faced with the challenge of decoding the information contained within these DNA sequences. Comparative analysis of DNA sequences from multiple species at varying evolutionary distances is a powerful approach for identifying coding and functional noncoding sequences, as well as sequences that are unique for a given organism. In this review, we outline the strategy for choosing DNA sequences from different species for comparative analyses and describe the methods used and the resources publicly available for these studies.

Footnotes

6 Corresponding author.

E-MAIL kelly_frazer{at}perlegen.com; FAX (650) 625-4510.

Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.222003.


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