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PredictRegulon specifications

Information


Unique identifier OMICS_15161
Name PredictRegulon
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained No

Maintainer


This tool is not available anymore.

Publication for PredictRegulon

PredictRegulon in publications

 (5)
PMCID: 3182930
PMID: 21980287
DOI: 10.1371/journal.ppat.1002261

[…] the alignx program from vectornti (invitrogen), and the resulting multiple alignment of similar motifs was used as a matrix to detect conserved binding sites in different genomes using the programs predictregulon and predetector ., the protein hydropathy profile was calculated using the server toppred using a 20-residue long sliding window (core window: 14 residues, wedge windows: 4 […]

PMCID: 2689224
PMID: 19445690
DOI: 10.1186/1471-2199-10-46

[…] search could reveal new potential target genes of colr. thus, sequences similar to identified colr binding sites were searched from the genome of p. putida kt2440 using two free-access web-servers, predictregulon [,] and virtual footprint [,]. several inquiries with varying input sequence length and strand orientation were performed. results of both programmes were compared and identical hits […]

PMCID: 2518855
PMID: 18773116
DOI: 10.1371/journal.ppat.1000145

[…] [ttanaatnattntaa] and adcr [ttaac(t/c)(a/g)gttaa] conserved motif sequences using both acmes (advanced content matching engine for sequences) provided by the university of missouri-columbia and the predictregulon web server ., binding of recombinant perr to dna fragments representing putative perr-regulated promoters was performed as described with modifications . promoter dna fragments […]

PMCID: 2377448
PMID: 18400778
DOI: 10.1093/nar/gkn140

[…] the single binding site model, the multiple binding sites model and the homotypic cooperative binding model for several pwm's;. moreover, we also evaluated the online available prediction methods predictregulon (), cluster buster () and mscan (). we could not make a comparison with the method of liu and clarke () or granek and clarke () since there are no data available on protein […]

PMCID: 2175319
PMID: 17921500
DOI: 10.1093/nar/gkm782

[…] promoter: ttatt, cangna and ttatt. these motifs match with some of the nucleotide sequences included in the generic sta1-binding region for sirv1 promoter regions (). in silico searches using the predictregulon server () of the defined sta1-binding motif throughout the s. solfataricus genome have not revealed the presence of that binding sequence in any other s. solfataricus gene promoter […]


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PredictRegulon institution(s)
Computational & Functional Genomics Group, Centre for DNA Fingerprinting and Diagnostics, EMBnet India Node, Hyderabad, India; Molecular Oncology Laboratory, Centre for DNA Fingerprinting and Diagnostics, EMBnet India Node, Hyderabad, India
PredictRegulon funding source(s)
This work is partially supported by the Council of Scientific and Industrial Research (CSIR).

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