R/maanova pipeline

R/maanova specifications

Information


Unique identifier OMICS_07680
Name R/maanova
Alternative names MicroArray ANalysis Of VAriance, MAANOVA
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Gary Churchill <>

Publication for MicroArray ANalysis Of VAriance

R/maanova citations

 (6)
2016
PMCID: 4915531

[…] scatterplot smoothing (lowess) [yang et al., 2002] in r [r‐development‐core‐team, 2010]. the determination of differential gene expression was carried out by microarray analysis of variance (maanova) [wu et al., 2003], and the false‐discovery rate‐ (fdr) adjusted p‐values were calculated as described elsewhere [jackson et al., 2014]. the complete dataset is available from geo (accession […]

2016
PMCID: 5180171

[…] microarray data, normalised using locally weighted scatterplot smoothing (lowess) regression modelling method and statistical significance of the differentially expressed genes was determined using microarray analysis of variance (maanova) in r statistical software (http://www.r-project.org). the fs statistic (34) was used to test the treatment effects compared with the matched controls exposed […]

2014
PMCID: 3961184

[…] connection through the (resistant) tiassalé groups (fig. 1 a, b). exp1 was analysed using genespring gx v9.0 software (agilent), which is readily applied to dye swap experiments, while the r program maanova [65], with limma [66] for normalisation prior to anova, was used to analyse the interwoven loop in exp2, using previously-described custom r-scripts [32]. for both experiments, the basic […]

2010
PMCID: 3098106

[…] genomes) pathways [16,17]. pathways were constructed using the mgug4121a.db r library and consisted of only those pathways containing two or more genes with no missing expression values., using a maanova [18] with an fdr corrected p-value of 0.10, dong et al. [14] discovered 96 differentially regulated genes. of these, 72 genes encoded proteins of known function. approximately 50% (34 genes) […]

2008
PMCID: 2275083

[…] probe by dividing the signal intensity of the immunoprecipitated dna sample by that of input, consisting of input dna. a confidence value was calculated for each microarray probe using the maanova package and corrected for multiple testing using benjamini–hochberg false-discovery rate control. a combination of confidence value and binding ratio cutoffs was used to identify […]

R/maanova institution(s)
The Jackson Laboratory, Bar Harbor, ME, USA

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