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jPREdictor specifications

Information


Unique identifier OMICS_23364
Name jPREdictor
Software type Application/Script
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Version 1.23
Stability Stable
Source code URL https://bibiserv.cebitec.uni-bielefeld.de/applications/jpredictor/resources/downloads/jPREdictor-1.23-src_doc.zip
Maintained Yes

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Maintainer


  • person_outline Marc Rehmsmeier <>

Publication for jPREdictor

jPREdictor in publications

 (3)
PMCID: 4232591
PMID: 25396739
DOI: 10.1371/journal.pone.0112871

[…] . genomic sequences 3000 bp upstream of the atg (translation start site) were downloaded for each putative clock gene with de wormmart tool . regulatory elements analysis was then performed with the jpredictor v1.with default parameters ., a phylogenetic tree of the phylum nematoda was built using cytochrome b sequences, as previously described . the sets of orthologous proteins were aligned […]

PMCID: 4426795
PMID: 25189741
DOI: 10.1038/mt.2014.163

[…] are not represented in the known ucsc genomic sequence of genes of interest. further analysis of characterized polycomb/trithorax response elements (pre/tres or pres for short) was performed using jpredictor tool http://bibiserv.techfak.uni-bielefeld.de/jpredictor., statistical analysis. data are expressed as means ± sem. data were analyzed using graphpad prism (version 5; graphpad software, […]

PMCID: 3401425
PMID: 22416065
DOI: 10.1093/nar/gks209

[…] of pcg target genes, here we propose a novel computational method, epipredictor, that achieved significantly higher matching ratios with several recent chromatin immunoprecipitation studies than jpredictor, an existing computational method. we further validated a subset of genes that were uniquely predicted by epipredictor by cross-referencing existing literature and by experimental means. […]


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jPREdictor institution(s)
Center for Biotechnology, CeBiTec, Universitat Bielefeld, Bielefeld, Germany
jPREdictor funding source(s)
Supported by the Deutsche Forschungsgemeinschaft, Bioinformatics Initiative.

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