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Bioinformatics. 2018 Mar 1;34(5):864-866. doi: 10.1093/bioinformatics/btx687.

MutaNET: a tool for automated analysis of genomic mutations in gene regulatory networks.

Author information

1
Center for Bioinformatics, Campus Building E2.1, Saarland University, D-66123 Saarbrücken, Germany.
2
Institute for Biostatistics and Informatics in Medicine and Ageing Research, Rostock University Medical Center, D-18057 Rostock, Germany.
3
Saarbrücken Graduate School of Computer Science, Saarland University, D-66123 Saarbrücken, Germany.

Abstract

Summary:

Mutations in genomic key elements can influence gene expression and function in various ways, and hence greatly contribute to the phenotype. We developed MutaNET to score the impact of individual mutations on gene regulation and function of a given genome. MutaNET performs statistical analyses of mutations in different genomic regions. The tool also incorporates the mutations in a provided gene regulatory network to estimate their global impact. The integration of a next-generation sequencing pipeline enables calling mutations prior to the analyses. As application example, we used MutaNET to analyze the impact of mutations in antibiotic resistance (AR) genes and their potential effect on AR of bacterial strains.

Availability and implementation:

MutaNET is freely available at https://sourceforge.net/projects/mutanet/. It is implemented in Python and supported on Mac OS X, Linux and MS Windows. Step-by-step instructions are available at http://service.bioinformatik.uni-saarland.de/mutanet/.

Contact:

volkhard.helms@bioinformatik.uni-saarland.de.

Supplementary information:

Supplementary data are available at Bioinformatics online.

PMID:
29087464
DOI:
10.1093/bioinformatics/btx687
[Indexed for MEDLINE]

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