Linked Life Data

20375458

Source:http://linkedlifedata.com/resource/pubmed/id/20375458

Statements in which the resource exists as a subject.
PredicateObject
rdf:type
lifeskim:mentions
pubmed:issue
3
pubmed:dateCreated
2010-4-8
pubmed:abstractText
We investigated the problem of imprecisely determined prokaryotic transcription factor (TF) binding sites (TFBSs). We found that the identification and reinvestigation of questionable binding motifs may result in improved models of these motifs. Subsequent modelbased predictions of gene regulatory interactions may be performed with increased accuracy when the TFBSs annotation underlying these models has been re-adjusted. We present MoRAine 2.0, a significantly improved version of MoRAine. It can automatically identify cases of unfavorable TFBS strand annotations and imprecisely determined TFBS positions. With release 2.0, we close the gap between reasonable running time and high accuracy. Furthermore, it requires only minimal input from the user: (1) the input TFBS sequences and (2) the length of the flanking sequences. CONCLUSIONS: MoRAine 2.0 is an easy-to-use, integrated, and publicly available web tool for the re-annotation of questionable TFBSs. It can be used online or downloaded as a stand-alone version from http://moraine.cebitec.uni-bielefeld.de.
pubmed:language
eng
pubmed:journal
pubmed:citationSubset
IM
pubmed:chemical
pubmed:status
MEDLINE
pubmed:issn
1613-4516
pubmed:author
pubmed:issnType
Electronic
pubmed:volume
7
pubmed:owner
NLM
pubmed:authorsComplete
Y
pubmed:meshHeading
pubmed:year
2010
pubmed:articleTitle
Efficient online transcription factor binding site adjustment by integrating transitive graph projection with MoRAine 2.0.
pubmed:affiliation
Genome Informatics, Bielefeld University, Bielefeld, Germany. Tobias.Wittkop@CeBiTec.Uni-Bielefeld.DE
pubmed:publicationType
Journal Article, Research Support, Non-U.S. Gov't