NetProphet specifications


Unique identifier OMICS_13787
Name NetProphet
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 2.0
Stability Beta
Maintained Yes




No version available


  • person_outline Michael Brent

Publications for NetProphet

NetProphet citations


NetProphet 2.0: mapping transcription factor networks by exploiting scalable data resources

PMCID: 5860202
PMID: 28968736
DOI: 10.1093/bioinformatics/btx563

[…] n be obtained from low cost, reliable and easily scalable experiments. Expression-only approaches to network inference have had notable successes on bacterial networks (; ; ; ; ; ). More recently the NetProphet algorithm, which directly compares expression profiles from TF-knockout strains and wild-type strains, has been shown to give good results on single-cell eukaryotes (; ). There is evidence […]


Networks of fibers and factors: regulation of capsule formation in Cryptococcus neoformans

PMCID: 4979528
PMID: 27516877
DOI: 10.12688/f1000research.8854.1

[…] nt work, Maier et al. developed and demonstrated a feasible, efficient, and novel workflow to identify transcription factors involved in capsule production. They first applied a bioinformatics tool, NetProphet , to gene expression profiles of strains with deletions of genes encoding regulators. This tool, which combines data from both co-expression and differential expression, ranks all possible […]

NetProphet institution(s)
Department of Computer Science and Engineering and Center for Genome Sciences and Systems Biology Washington University, Saint Louis, MO, USA; Department of Mathematics, Washington University, Saint Louis, MO, USA
NetProphet funding source(s)
Supported in part by NIH T32 training grant HG000045 (National Human Genome Research Institute) and R01 grants AI087794 (National Institute for Allergy and Infectious Disease) and GM100452 (National Institute of General Medical Sciences).

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