anota: ANalysis Of Translational Activity (ANOTA).

Genome wide studies of translational control is emerging as a tool to study verious biological conditions. The output from such analysis is both the mRNA level (e.g. cytosolic mRNA level) and the levl of mRNA actively involved in translation (the actively translating mRNA level) for each mRNA. The standard analysis of such data strives towards identifying differential translational between two or more sample classes - i.e. differences in actively translated mRNA levels that are independent of underlying differences in cytosolic mRNA levels. This package allows for such analysis using partial variances and the random variance model. As 10s of thousands of mRNAs are analyzed in parallell the library performs a number of tests to assure that the data set is suitable for such analysis.

Author
Ola Larsson <ola.larsson@ki.se>, Nahum Sonenberg <nahum.sonenberg@mcgill.ca>, Robert Nadon <robert.nadon@mcgill.ca>
Date of publication
None
Maintainer
Ola Larsson <ola.larsson@ki.se>
License
GPL-3
Version
1.22.0

View on Bioconductor

Man pages

anotaDataSet
Sample data set for anota
anotaGetSigGenes
Identify genes that are under translational control...
anotaPerformQc
Perform quality control to ensure that the supplied data set...
anotaPlotSigGenes
Filter and plot genes to visualize/summarize genes that are...
anotaResidOutlierTest
Test for normality of residuals

Files in this package

anota/DESCRIPTION
anota/NAMESPACE
anota/R
anota/R/anotaDfbetas.R
anota/R/anotaDiffExp.R
anota/R/anotaQc.R
anota/R/anotaResids.R
anota/build
anota/build/vignette.rds
anota/data
anota/data/anotaDataSet.RData
anota/inst
anota/inst/NEWS
anota/inst/doc
anota/inst/doc/anota.R
anota/inst/doc/anota.Rnw
anota/inst/doc/anota.pdf
anota/man
anota/man/anotaDataSet.Rd
anota/man/anotaGetSigGenes.Rd
anota/man/anotaPerformQc.Rd
anota/man/anotaPlotSigGenes.Rd
anota/man/anotaResidOutlierTest.Rd
anota/vignettes
anota/vignettes/anota.Rnw
anota/vignettes/fig
anota/vignettes/fig/anotaPlotSigOut.pdf
anota/vignettes/fig/dfbs.pdf
anota/vignettes/fig/int.pdf
anota/vignettes/fig/resid.jpg
anota/vignettes/fig/residSingle.pdf
anota/vignettes/fig/rvm.jpg
anota/vignettes/fig/singleReg.pdf