Sentence examples for motif extraction algorithm from inspiring English sources

We use CPs extracted by MEX (Motif Extraction algorithm) to study evolutionary processes in olfactory receptors.

We extract deterministic motifs from ORs belonging to ten species using the MEX (Motif Extraction) algorithm, thus defining Common Peptides (CPs) characteristic to ORs.

MEX is a motif extraction algorithm introduced by [ 9] as part of a method for grammar induction from texts and was later used on proteins [ 10].

SP: specific peptides; PP: putative peptides; MEX: motif extraction algorithm; EC: enzyme commission classification; ORF: open reading frame; NW: Needleman Wunsch.

We apply the motif extraction algorithm MEX [ 9], the efficacy of which has been previously demonstrated in the study of enzymes [ 10], to 4027 OR sequences of 10 vertebrates.

Many simple motif extraction algorithms have been proposed primarily for extracting the transcription factor binding sites, where each motif consists of a unique binding site [ 4- 10] or two binding sites separated by a fixed number of gaps [ 11- 13].

Thus, it can be used when the results of several motif extraction algorithms are compared, for instance in the interpretation of ChIP-chip experiments [ 5].

To determine whether the peptides that exhibited putative SRC-dependent phosphorylation sites were enriched for specific sequences flanking the tyrosine phosphoacceptor, we utilized an on-line extraction algorithm, Motif-X (motif-x.med.harvard.edu), developed by Schwartz and Gygi [36], [37].

We compare our results with the latest version of RISO [ 15- 17] (called RISOTTO [ 17]), the best previous algorithm for structured motif extraction problem.

A naive text search algorithm was applied for motif extraction (see Figure 2).

In ExMotif: Efficient Structured Motif Extraction, Yongqiang Zhang and Mohammed J. Zaki [ 3], describe a new algorithm called EXMOTIF to extract frequent motifs from DNA sequences.