Motif-Aware PRALINE: Improving the alignment of motif regions
نویسندگان
چکیده
منابع مشابه
Sequence Alignment with Motif Database
Both sequence alignment and motif scan are e ective sequence analysis methods, which give us clews to a function of a newly determined sequence. Sequence alignment tools like FASTA [1] and BLAST [2] search for similar sequences from a sequence database and display the similarity. Motif scan tools search for sequence patterns which are already known to have some kind of functions from a motif da...
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We develop new methods based on graph motifs for graph clustering, allowing more efficient detection of communities within networks. We focus on triangles within graphs, but our techniques extend to other clique motifs as well. Our intuition, which has been suggested but not formalized similarly in previous works, is that triangles are a better signature of community than edges. We therefore ge...
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Eukaryotic gene expression is regulated by transcription factors (TFs) binding to promoter as well as distal enhancers. TFs recognize short, but specific binding sites (TFBSs) that are located within the promoter and enhancer regions. Functionally relevant TFBSs are often highly conserved during evolution leaving a strong phylogenetic signal. While multiple sequence alignment (MSA) is a potent ...
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Most of the genetic information can be conveniently classi ed into two categories: the information on the amino acid sequences and the information on their regulation. With the recent progress of largescale sequencing e orts, a large number of hypothetical amino acid sequences have been determined. However, the computational study of their regulatory sequences is still in its infant stage. To o...
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ژورنال
عنوان ژورنال: PLOS Computational Biology
سال: 2018
ISSN: 1553-7358
DOI: 10.1371/journal.pcbi.1006547