YuGene-package: A Simple Approach to Scale Gene Expression Data Derived from...

In YuGene: A Simple Approach to Scale Gene Expression Data Derived from Different Platforms for Integrated Analyses

Description

Simple method for comparison of gene expression generated across different experiments, and on different platforms; that does not require global renormalization, and is not restricted to comparison of identical probes. YuGene works on a range of microarray dataset distributions, such as between manufacturers. The resulting output allows direct comparisons of gene expression between experiments and experimental platforms.

Details

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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)

Kim-Anh Le Cao, Florian Rohart, Leo McHugh, Othmar Korn, Christine A. Wells

Maintainer: Florian Rohart <[e-mail]>

References

Kim-Anh L 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.

YuGene documentation built on May 2, 2019, 2:46 p.m.