Sentence examples for profile motifs from inspiring English sources

SMOTIF is a useful and efficient tool in searching for structured pattern and profile motifs.

We introduced SMOTIF, a fast and efficient algorithm to search structured pattern and profile motifs in biological sequences.

Profile motifs were created by using all annotated HLA class I peptides in this study and the sequence logo generator WebLogo.

SMOTIF can search for both pattern and profile motifs, and it is efficient in terms of both time and space; it outperforms SMARTFINDER, a state-of-the-art algorithm for structured motif search.

In the paper Refining Motifs by Improving Information Content Scores using Neighborhood Profile Search, Chandan K. Reddy, Yao-Chung Weng and Hsiao-Dong Chiang [ 4], show how one can refine the profile motifs discovered via Expectation Maximization and Gibbs Sampling based methods.

From the MIPS [19] database, 2678 protein-motif associations (e.g. YCR065W protein has "Fork head domain signatures and profile" motif) are extracted, covering 2179 proteins across 992 motif categories.

(B ) Logo showing the profile motif for peptides presented by different HLA-A and -B alleles.

Figure 9 shows how we search for the example profile motif from Figure 8, namely M1 [0, 5] M2 [0, 9] M3.

Our approach to profile motif search consists of the following two steps: a) convert the raw frequency profile into a relative profile weighted by information content at each position, b) enumerate occurrences matching the profile.

A similar proportion occurs in the intersection between the star and up/down regulated signature subset profiles: 75 motifs, or 77.3% of the up/down signature subset motifs and 38.9% of the star motifs (again: p-value <10−9).

The profiles of motifs and anti-motifs manifest the functional preferences and repudiations of the particular network.