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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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Versioning


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Documentation


Maintainer


  • person_outline Clemens Wrzodek

Publication for ModuleMaster

ModuleMaster citations

 (3)
library_books

Improving Collaboration by Standardization Efforts in Systems Biology

2014
Front Bioeng Biotechnol
PMCID: 4259112
PMID: 25538939
DOI: 10.3389/fbioe.2014.00061

[…] 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 betwe […]

library_books

Regulatory elements of Caenorhabditis elegans ribosomal protein genes

2012
BMC Genomics
PMCID: 3575287
PMID: 22928635
DOI: 10.1186/1471-2164-13-433

[…] ModuleMaster is a program that can scan sequences for individual or combinatorial matches to position weight matrices using the MATCH matrix scan algorithm [,]. Here, we used ModuleMaster to scan the […]

library_books

Linking the Epigenome to the Genome: Correlation of Different Features to DNA Methylation of CpG Islands

2012
PLoS One
PMCID: 3340366
PMID: 22558141
DOI: 10.1371/journal.pone.0035327

[…] CpG island sequences and a weight score, covering the quality of the match and the significance, based on the frequency of the actual sequence in the whole human genome is used as a feature. We used ModuleMaster to apply the PFMs to the sequences and calculate the weight scores.Splice sites (5 features). We used all four PFMs, generated from SpliceDB to identify splice sites. The four PFMs corr […]

Citations

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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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