EBarrays protocols

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EBarrays statistics

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Associated diseases

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EBarrays specifications


Unique identifier OMICS_20502
Name EBarrays
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.44.0
Stability Stable
methods, stats, graphics, Biobase, grDevices, lattice, cluster, R(>=1.8.0)
Maintained Yes



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  • person_outline Ming Yuan <>

EBarrays in pipeline

PMCID: 2906484
PMID: 20591176
DOI: 10.1186/1471-2407-10-343

[…] estimate the gene expression signals and evaluated using the robust multi-array average []. data normalization was performed using a bayes method at bioconductor, which includes log normal modeling. ebarrays was used to estimate the posterior probabilities of the differential expression of genes between the control and treated sample [,]. this data has been deposited with gene expression omnibus […]

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EBarrays in publications

PMCID: 5809686
PMID: 29203642
DOI: 10.1128/MCB.00457-17

[…] with those for the control sirna-treated samples, taken as baseline expression. changes in expression were statistically analyzed using the empirical bayes method implemented in the r package ebarrays, a publicly available statistical analysis system (http://www.r-project.org). we used the log-normal normal (lnn) expression model to calculate posterior probabilities of differential […]

PMCID: 5576712
PMID: 28854209
DOI: 10.1371/journal.pone.0181242

[…] local and metastatic cervical cancer were used to induce a disease-specific transcriptional signature in cultured, healthy peripheral blood mononuclear cells (pbmcs). an empirical bayesian method, ebarrays, was used to identify differentially expressed (de) genes with a target false discovery rate of <5%. ingenuity pathway analysis (ipa) software was used to detect the top molecular […]

PMCID: 5551475
PMID: 28819626
DOI: 10.1155/2017/5310198

[…] the maximum likelihood estimators of the parameters. we demonstrated the performance of the proposed method in a comparison of some other popular statistical methods such as anova, sam, limma, kw, ebarrays, gaga, and bridge using both simulated and real gene expression datasets. we observe that all methods show good and almost equal performance in absence of outliers for the large-sample […]

PMCID: 5512859
PMID: 28729763
DOI: 10.6026/97320630013202

[…] there are several parametric and non-parametric approaches for de metabolite identification. the well-known parametric tests are student׳s t-test, f-test, significant analysis of microarray (sam), ebarrays, bridge, limma etc. and non-parametric tests are wilcoxon signed-rank test, mann-whitney test, kruskal-wallis test etc. however, biologist often use fold change method for influential […]

PMCID: 5343379
PMID: 28274266
DOI: 10.1186/s13104-017-2447-6

[…] platform (www.genexplain-platform.com) to perform a principal component analysis (pca). the genexplain platform was further used to detect differentially expressed genes for all samples with the ebarrays workflow., for the starting experiments, we pooled four rat pcls and used a column-based standard rna isolation protocol (rneasy mini kit). unfortunately, this standard isolation procedure […]

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