ModuleMaster specifications

Information


Unique identifier OMICS_17480
Name ModuleMaster
Software type Package/Module
Interface Graphical user interface
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Clemens Wrzodek <>

Publication for ModuleMaster

ModuleMaster in publications

 (3)
PMCID: 4259112
PMID: 25538939
DOI: 10.3389/fbioe.2014.00061

[…] solve their models (asai et al., ). physiodesigner uses flint and submits jobs to this cloud service., the inference of regulatory networks is a challenge for many areas of research. the program modulemaster (wrzodek et al., ) identifies cis-regulatory modules (crms) in sets of co-expressed genes based on transcription factor binding information and multivariate functional relationships […]

PMCID: 3575287
PMID: 22928635
DOI: 10.1186/1471-2164-13-433

[…] range” shows the 95% distribution range (in bp) of the motif with respect to the atg; “num total instances” indicates the total number of sites of the motif found in all 22,428 upstream regions by modulemaster []; “num total sequences” indicates the number of upstream regions that contain at least one instance of each motif according to modulemaster; “fold enrichment” indicates the fold […]

PMCID: 2994704
PMID: 21152420
DOI: 10.1371/journal.pone.0013876

[…] 10 genes were found to be known heat shock genes by gene set enrichment analysis (corrected p-value ). next, the promoter sequences of these genes were scanned for cis-regulatory modules using the modulemaster algorithm . as explained in more detail in the section (see ‘application to sets of co-expressed genes’), modulemaster uses a multi-objective optimization approach to find tfbs […]


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ModuleMaster institution(s)
Center for Bioinformatics Tübingen (ZBIT), University of Tübingen, Tübingen, Germany; Center for Plant Physiology Tübingen (ZMBP), University of Tübingen, Tübingen, Germany
ModuleMaster funding source(s)
This work was supported by German Federal Ministry of Education and Research (BMBF) [National Genome Research Network (NGFNplus) under grant number 01GS08134; HepatoSys under grant number 0313080 L].

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