Open Access
2010 Spaced Seeds for Cross-species CDNA-to-genome Sequence Alignment
Leming Zhou, Ingrid Mihai, Liliana Florea
Commun. Inf. Syst. 10(2): 115-136 (2010).


We review recent developments in spaced seed design for cross-species sequence alignment. We start with a brief overview of original ideas and early techniques, and then focus on more recent work on finding accurate (sensitive and specific) seeds for cross-species cDNA-to-genome alignment. These recent developments include methods and models for estimating seed specificity and determining sensitive and specific seeds, finding seeds that can be applied to a wide range of comparisons, and applying seed models to other computational biology areas, such as gene finding.


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Leming Zhou. Ingrid Mihai. Liliana Florea. "Spaced Seeds for Cross-species CDNA-to-genome Sequence Alignment." Commun. Inf. Syst. 10 (2) 115 - 136, 2010.


Published: 2010
First available in Project Euclid: 9 March 2010

zbMATH: 1185.92051

Keywords: cDNA , genome , Markov model , spaced seeds

Rights: Copyright © 2010 International Press of Boston

Vol.10 • No. 2 • 2010
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