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BMCBI
2010

An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs

11 years 8 months ago
An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs
Background: Transcription factors (TFs) control transcription by binding to specific regions of DNA called transcription factor binding sites (TFBSs). The identification of TFBSs is a crucial problem in computational biology and includes the subtask of predicting the location of known TFBS motifs in a given DNA sequence. It has previously been shown that, when scoring matches to known TFBS motifs, interdependencies between positions within a motif should be taken into account. However, this remains a challenging task owing to the fact that sequences similar to those of known TFBSs can occur by chance with a relatively high frequency. Here we present a new method for matching sequences to TFBS motifs based on intuitionistic fuzzy sets (IFS) theory, an approach that has been shown to be particularly appropriate for tackling problems that embody a high degree of uncertainty. Results: We propose SCintuit, a new scoring method for measuring sequence-motif affinity based on IFS theory. Unli...
Fernando Garcia-Alcalde, Armando Blanco, Adrian J.
Added 09 Dec 2010
Updated 09 Dec 2010
Type Journal
Year 2010
Where BMCBI
Authors Fernando Garcia-Alcalde, Armando Blanco, Adrian J. Shepherd
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