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cisTargetX specifications


Unique identifier OMICS_18785
Name cisTargetX
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained No


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Publication for cisTargetX

cisTargetX in publications

PMCID: 5569996
PMID: 28854641
DOI: 10.1093/gbe/evx127

[…] pulex, we developed the method daphnia-cistarget that identifies overrepresented cis-regulatory motifs and candidate regulators in a set of coexpressed genes. the approach and algorithm are based on cistargetx. cistargetx and its follow-up methods i-cistarget and evo-cistarget are successfully applied for motif discovery in fruit fly, human, and mouse (; ; ; ; ). we use daphnia-cistarget […]

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

[…] newer programs combine phylogeny and possibly other information with tfbs patterns, either with consistent positioning (stubb []; emma []; twine []) or without it ([]; phylocon []; cisplusfinder []; cistargetx [, ]). programs searching a single genome for the consistent positional preferences within rms are therefore surprisingly rare []., notably, all our significant clusters occurred within […]

PMCID: 4053989
PMID: 23972280
DOI: 10.1186/gb-2013-14-8-r86

[…] whether they display an evolutionarily conserved signature in their non-coding regions when compared with all drosophila genes, or the 36 epidermal genes independent of svb as a negative control. cistargetx aims at detecting motifs enriched among a group of co-expressed genes - for example, to predict direct targets of a tf []. it exploits a library of >3,000 motifs, including tf bss […]

PMCID: 3706223
PMID: 23560912
DOI: 10.1186/1471-2164-14-226

[…] set of 1394 non-overlapping crers, hereafter denoted as “predicted crms”., in addition to de novo motif discovery, we analysed the enrichment of the zga cluster for known motifs, using the program cistargetx []. this tool reveals enriched regulatory features (e.g. motifs or in-vivo datasets) in a set of regions, and ranks these features using a z-score like enrichements score. consistently, […]

PMCID: 3510041
PMID: 23209438
DOI: 10.1371/journal.pgen.1003081

[…] using the flymine database ( (see for details)., ; see for details., ; see for details., , ; see for details., transcriptional regulatory network were predicted with cistargetx ( the z score of the most representative tf-binding motif is indicated for each motif family. (see for details)., to validate the microarray […]

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cisTargetX institution(s)
Laboratory of Neurogenetics, Department of Molecular and Developmental Genetics, VIB, Leuven, Belgium; Laboratory of Computational Biology, Katholieke Universiteit (K.U.) Leuven, Leuven, Belgium; Center for Human Genetics, K.U. Leuven, Leuven, Belgium; Doctoral Program in Molecular and Developmental Genetics, K.U. Leuven Group Biomedicine, Leuven, Belgium
cisTargetX funding source(s)
Supported by VIB and Impuls, CREA, and Geconcerteerd Onderzoeksacties (GOA) grants from K.U. Leuven, FWO project 3M070090, and FWO postdoctoral fellowship.

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