A Gibbs sampler for identification of symmetrically structured, spaced DNA motifs with improved estimation of the signal length | Zendy

Alexander V. Favorov | Zendy; Mikhail S. Gelfand | Zendy; Анна Герасимова | Zendy; Dmitry A. Ravcheev | Zendy; Mironov AIu | Zendy; Vsevolod J. Makeev | Zendy

Open Access

A Gibbs sampler for identification of symmetrically structured, spaced DNA motifs with improved estimation of the signal length

Author(s) -

Alexander V. Favorov,

Mikhail S. Gelfand,

Анна Герасимова,

Dmitry A. Ravcheev,

Mironov AIu,

Vsevolod J. Makeev

Publication year - 2005

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bti336

Subject(s) - motif (music) , computational biology , dna , sequence motif , genetics , computer science , structural motif , biology , pattern recognition (psychology) , algorithm , artificial intelligence , physics , biochemistry , acoustics

Transcription regulatory protein factors often bind DNA as homo-dimers or hetero-dimers. Thus they recognize structured DNA motifs that are inverted or direct repeats or spaced motif pairs. However, these motifs are often difficult to identify owing to their high divergence. The motif structure included explicitly into the motif recognition algorithm improves recognition efficiency for highly divergent motifs as well as estimation of motif geometric parameters.

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