Citing Normalyzer


Chawade, A., Alexandersson, E., Levander, F. Normalyzer: a tool for rapid evaluation of normalization methods for omics data sets. J Proteome Res 2014 doi:10.1021/pr401264n

Normalyzer uses previously published R packages. So kindly cite following R packages when directly used in your work:

R/Bioconductor:
Gentleman et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol 2004, 5, (10), R80.

Quantile Normalization (preprocessCore package)
Bolstad, B., preprocessCore: A collection of pre-processing functions. R package version 1.20.0. In 2013

NormFinder
Anderson et al. Normalization of real-time quantitative reverse transcription-PCR data: a model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets. Cancer Res 2004, 64, (15), 5245-50.

VSN (vsn package)
Huber et al. Variance stabilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics 2002, 18 Suppl 1, S96-104

LOESS (Limma package)
Smyth, G. K., Limma: Linear Models for Microarray Data. In Bioinformatics and Computational Biology Solutions Using R and Bioconductor, Gentleman, R.; Carey, V. J.; Huber, W.; Irizarry, R. A.; Dudoit, S., Eds. Springer New York, 2005.


Contact Us

Send your feedback to:

Aakash Chawade
Researcher
aakash.chawade(at)slu.se

Fredrik Levander
Associate Professor
fredrik.levander(at)immun.lth.se

Dept. of Immunotechnology,
Lund University,
Medicon Village 406, 223 81, Lund, Sweden

More tools at: quantitativeproteomics.org