Phyloscan
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Phyloscan[1][2] is a web service for DNA sequence analysis that is free and open to all users (without login requirement). For locating matches to a user-specified sequence motif for a regulatory binding site, Phyloscan provides a statistically sensitive scan of user-supplied mixed aligned and unaligned DNA sequence data. Phyloscan's strength is that it brings together
- the Staden method[3] for computing statistical significance,
- the "phylogenetic motif model" scanning functionality of the MONKEY software[4] that models evolutionary relationships among aligned sequences,
- the use of the Bailey & Gribskov method[5] for combining statistics across non-aligned sequence data, and
- the Neuwald & Green technique[6] for combining statistics across multiple binding sites found within a single gene promoter region.
References
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