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SiTaR specifications

Information


Unique identifier OMICS_12920
Name SiTaR
Alternative name Site Tracking and Recognition
Interface Web user interface
Restrictions to use None
Input data Binding sites
Programming languages PHP
Computer skills Basic
Version 0.1
Stability Stable
Maintained Yes

Maintainer


  • person_outline Ekaterina Shelest

Publication for Site Tracking and Recognition

SiTaR citations

 (3)
library_books

Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co localization within regulatory modules

2016
BMC Bioinformatics
PMCID: 5117513
PMID: 27871221
DOI: 10.1186/s12859-016-1354-5

[…] corresponding to significantly enriched intersections and thereby to discover candidate RMs.Many computer programs predict TFBSs (reviewed by []). Some programs focus on sequence pattern (P-Match []; SiTaR []), particularly early programs (reviewed in []). Several exploit combinations of motifs, but not consistent positioning (Cister []; COMET []; AliBaba2 []; Ahab [–]; SCORE []). Programs based o […]

library_books

Computational prediction of molecular pathogen host interactions based on dual transcriptome data

2015
Front Microbiol
PMCID: 4319478
PMID: 25705211
DOI: 10.3389/fmicb.2015.00065

[…] ed organisms.For both host and pathogen transcription factor binding motifs and binding sites can be obtained from databases, e.g., TRANSFAC (Matys et al., ), or predicted with bioinformatic tools as SiTaR (Fazius et al., ). […]

library_books

Microevolution of Candida albicans in Macrophages Restores Filamentation in a Nonfilamentous Mutant

2014
PLoS Genet
PMCID: 4256171
PMID: 25474009
DOI: 10.1371/journal.pgen.1004824

[…] d at the Gene Expression Omnibus (GSE56174) and can be found in . Nrg1 binding sites (A/C)(A/C/G)C3T in putative promoter regions (usually −1000 bp/+50 bp) of all C. albicans genes were determined by SiTaR allowing no mismatch. Fisher's exact test was used to determine if the Nrg1 motif-containing promoters were overrepresented in genes specifically upregulated twofold in the Evo strain, as compa […]

Citations

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SiTaR institution(s)
Research Group Systems Biology and Bioinformatics, Leibniz Institute for Natural Product Research and Infection Biology, Hans Knoll Institute, Jena, Germany

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