Sentence examples for motif finding tool from inspiring English sources

In contrast to the motif detection tools MAVisto [ 61] and Mfinder [ 36]), our implementation in Prolog and the FANMOD [ 62] motif finding tool are able to find any annotated network pattern consisting of any number of nodes and edges.

When using the PRIMA motif finding tool [ 35], six subnetworks showed significant enrichment (p < 10-5) for at least one TF (Table 2).

MEME is a de novo motif finding tool, which was designed for finding un-gapped motifs in unaligned DNA or protein sequences.

Thus our algorithm has achieved rather high prediction sensitivity even only using these limited 168 datasets, in particular when a putative CRE can be located in the CRMs by a motif finding tool.

The web tool is based on our previous ChIPMotifs program which is a de novo motif finding tool developed for ChIP-based high-throughput data and incorporated various ab initio motif discovery tools such as MEME, MaMF, Weeder and optimized the significance of the detected motifs by using a bootstrap resampling statistic method and a Fisher test.

However, it combines three existing motif finding tools for maximizing the chance obtaining true motifs.

CompleteMOTIF incorporated three existing motif finding tools into a Web tool.

Identification of shared amino acid motifs across the entire BCR sequence can be carried out using widely used motif finding tools [ 113].

GR ChIP-seq data identified peaks for GR binding that were examined using MEME [ 25], DNA motif finding tools, and presented a position weight matrix for the enriched GR motif and the co-occurring AP-1 motif.

For these kinds of problems, researchers used to examine whether the regulatory regions of the set of lncRNA genes contain an overrepresented sequence motif by using de novo sequence motif finding tools [ 15] or descriptors of the binding specificity of TFs, which may provide clues on which TFs could be common transcriptional regulators of the set of lncRNA genes.

De novo motif finding tools such as MEME [44] and MDScan [45] can be used for the transcription factors whose binding site consensuses are less well documented.