NDLI: AliBiMotif: Integrating alignment and biclustering to unravel transcription factor binding sites in DNA sequences

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AliBiMotif: Integrating alignment and biclustering to unravel transcription factor binding sites in DNA sequences

Content Provider	Semantic Scholar
Author	Gonçalves, Joana P. Moreau, Yves Madeira, Sara C.
Copyright Year	2012
Abstract	Transcription Factors (TFs) control transcription by binding to specific sites in the promoter regions of the target genes, which can be modelled by structured motifs. In this paper we propose AliBiMotif, a method combining sequence alignment and a biclustering approach based on efficient string matching techniques using suffix trees to unravel approximately conserved sets of blocks (structured motifs) while straightforwardly disregarding non-conserved stretches in-between. The ability to ignore the width of non-conserved regions is a major advantage of the proposed method over other motif finders, as the lengths of the binding sites are usually easier to estimate than the separating distances.
Starting Page	196
Ending Page	215
Page Count	20
File Format	PDF HTM / HTML
Alternate Webpage(s)	http://www.researchgate.net/profile/Sara_C_Madeira/publication/228058809_AliBiMotif_integrating_alignment_and_biclustering_to_unravel_transcription_factor_binding_sites_in_DNA_sequences/links/0deec53a86fe7ecb5d000000.pdf
Alternate Webpage(s)	https://www.wikidata.org/entity/Q51351826
PubMed reference number	22724298v1
Alternate Webpage(s)	https://doi.org/10.1504/IJDMB.2012.048198
DOI	10.1504/ijdmb.2012.048198
Journal	IJDMB
Volume Number	6
Issue Number	2
Language	English
Access Restriction	Open
Subject Keyword	Biclustering Binding Sites MATCHING Medical transcription Motif Promoter Regions, Genetic Sequence Alignment String searching algorithm Suffix tree Transcription (software) Trees (plant) transcription factor binding width
Content Type	Text
Resource Type	Article

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