Sentence examples for motif scanning algorithms from inspiring English sources

> -wrap-foot> Nothathathehe MEME Suite provides two other motif scanning algorithms that are useful in different scenarios.

The assumption of evolutionary conservation has also been utilized by a class of motif scanning algorithms based on what we call phylogenetic motif models (PMMs).

Database searches using a motif scanning algorithm [34] (scansite.mit.edu) identified candidate substrates for LRRK2 G2019S that contain sites that most resemble the sequences derived from the two peptide scans (Table 1).

We compared the primary amino acid sequences of the three human Dvl isoforms using the web-based motif scanning algorithm Scansite (http://scansite.mit.edu/) and confirmed the presence of this site in all of them.

In this paper, we have predicted CRP binding sites in 12 cyanobacteria genomes that encode a CRP orthologue using a highly accurate motif scanning algorithm.

In this paper, we have predicted the CRP regulons as well as CRP binding sites in 12 sequenced cyanobacterial genomes that encode at least one copy of the crp gene using a highly effective motif scanning algorithm [ 32, 33].

In this work, we have predicted the Pho regulons in 16 sequenced cynaobacterial genomes that encode the sphR gene using an efficient phylogenetic footprinting based motif scanning algorithm [ 13].

We then apply our motif scanning algorithm to predict putative CRP binding sites in the 12 cyanobacterial genomes that encode a crp gene using the profile of the 112 putative CRP binding sites as well as that of the previously prepared -10 like box from cyanobacteria [ 32].

On the other hand, the majority of the CRP targets in these cyanobacterial genomes are not conserved either, rather, only a small portion of the CRP targets are shared by more than 2 of the 12 cyanobacterial genomes, even though our motif scanning algorithm might be biased toward the genes that have orthologues in reference genomes (see Methods).

Homology and motif search of the gene products (Prep1 Prep50 proteins) using the Motif Scan algorithm (http://myhits.isb-sib.ch/cgi-bin/motif_scan) revealed the following notable motifs in PREP1 PREP11 (Fig. 2), which may suggest their putative physiological functions.

In this study we have predicted LexA-binding sites and analyzed the putative LexA regulons in 26 cyanobacterial genomes that harbor a lexA gene using a highly efficient motif scanning and regulon prediction algorithm.