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Related sites Bat conservation Background on bats.
A former international fashion executive - with no formal conservation background - is trying to save the highly endangered South China tiger from extinction thousands of miles away from the deep recesses of the Chinese countryside.
Traditional methods measure sequence conservation without considering the conservation background of the protein.
Therefore, the rareness of invariant sequences differs depending on the conservation background in each alignment.
In this study, calculating the relative conservation of sequences enabled the detection of a conservation signal of a SLiM compared to the conservation background of the protein in which the SLiM resides.
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This new characterization simultaneously addresses the model conservation, background-rareness and the compositional complexity properties of the regulatory motifs, which makes the present MISCORE functionally advantageous than IC, MAP score and the previous MISCORE versions.
By evaluating each instance k-mer (a candidate binding site) of a motif, MISCORE can quantify the likeliness of the candidate motif to be functional by a combined characterization on the model conservation, the background rareness and the compositional complexity.
MISCORE is a new scoring function for modeling motif signals that uses a combined characterization on the model conservation, the background rareness and the compositional complexity of functional motifs.
Note that a smaller r K, M) score characterizes a higher similarity of that K to M in respect to its dissimilarity to M ref and a better nucleotide complexity in K, which implies a combined characterization on the model conservation, the background rareness and the compositional complexity.
To develop a conserved promoter background, sequences with conservation scores higher than 75% for every gene were obtained and concatenated.
This PCT filter controlled for background conservation across mammals by accounting for mutational biases, dinucleotide conservation rates, and individual untranslated region conservation rates (Friedman et al. 2009).
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