YuGene-package: Transforms expression datasets to cumulative proportion for comparison using YuGene transform

Description

YuGene is a simple transform that answers the question: where is my gene of interest? across a range of datasets without the need to re-normalise datasets under consideration.

Details

Package: YuGene
Type: Package
Version: 1.1.3
Date: 2015-07-30
License: GPL >= 2

This package provides a single function (YuGene). It takes a log transformed dataset (ie multiple microarray samples in an experiment) and converts the values to a cumulative proportion. Values close to zero have the lowest expression, and values close to 1 have the highest expression. When many datasets have been YuGene transformed, relative expression levels (YuGene values) can be directly compared across experiments without re-normalization without significant loss of sensitivity when compared to quantile normalized data.

Author(s)

KA Le Cao, Translational Research Institute, The University of Queensland Diamantina Institute, Australia
Florian Rohart, Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, St Lucia, Australia
Leo McHugh, Queensland Facility for Advanced Bioinformatics
Othmar Korn, Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, St Lucia, Australia
Christine A. Wells, Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, St Lucia, Australia

References

Kim-Anh Lê Cao, Florian Rohart, Leo McHugh, Othmar Korn, Christine A. Wells. YuGene: A simple approach to scale gene expression data derived from different platforms for integrated analyses. Genomics. http://dx.doi.org/10.1016/j.ygeno.2014.03.001.


Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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