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mExplorer  

Identifying Master Gene Regulators from Gene Expression and DNA-Binding Data
View on CRAN: Click here


Download and install mExplorer package within the R console
Install from CRAN:
install.packages("mExplorer")

Install from Github:
library("remotes")
install_github("cran/mExplorer")

Install by package version:
library("remotes")
install_version("mExplorer", "1.0.0")



Attach the package and use:
library("mExplorer")
Maintained by
Juri Reimand
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2017-08-24
Latest Update: 2017-08-24
Description:
The method 'm:Explorer' associates a given list of target genes (e.g. those involved in a biological process) to gene regulators such as transcription factors. Transcription factors that bind DNA near significantly many target genes or correlate with target genes in transcriptional (microarray or RNAseq data) are selected. Selection of candidate master regulators is carried out using multinomial regression models, likelihood ratio tests and multiple testing correction. Reference: m:Explorer: multinomial regression models reveal positive and negative regulators of longevity in yeast quiescence. Juri Reimand, Anu Aun, Jaak Vilo, Juan M Vaquerizas, Juhan Sedman and Nicholas M Luscombe. Genome Biology (2012) 13:R55 .
How to cite:
Juri Reimand (2017). mExplorer: Identifying Master Gene Regulators from Gene Expression and DNA-Binding Data. R package version 1.0.0, https://cran.r-project.org/web/packages/mExplorer. Accessed 30 Jan. 2025.
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Complete documentation for mExplorer
Functions, R codes and Examples using the mExplorer R package
Some associated functions: mExplorer . prepare_gmt_input . small_test_dframe . small_test_response_vec . yeastCCgenes . yeastTFdata . 
Some associated R codes: mExplorer.R .  Full mExplorer package functions and examples
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