Transformation and normalization of oligonucleotide microarray data

Transformation and normalization of oligonucleotide microarray data

MOTIVATION Most methods of analyzing microarray data or doing power calculations have an underlying assumption of constant variance across all levels of gene expression. The most common transformation, the logarithm, results in data that have constant variance at high levels but not at low levels. Rocke and Durbin showed that data from spotted arrays fit a two-component model and Durbin, Hardin...

cDNA Microarray Data Normalization

Normalization of Microarray Data

DNA microarrays are a powerful technology for analysis of gene expression levels within cells. Both the cDNA and oligonucleotide technologies for microarrays are fairly young and are prone to a broad collection of errors and inaccuracies [KYML02]. In this paper we briefly discuss some sources of error and detail a variety of methods for normalizing the data with respect to some of these error s...

Normalization of cDNA microarray data.

Normalization means to adjust microarray data for effects which arise from variation in the technology rather than from biological differences between the RNA samples or between the printed probes. This paper describes normalization methods based on the fact that dye balance typically varies with spot intensity and with spatial position on the array. Print-tip loess normalization provides a wel...

compactifications and representations of transformation semigroups

this thesis deals essentially (but not from all aspects) with the extension of the notion of semigroup compactification and the construction of a general theory of semitopological nonaffine (affine) transformation semigroup compactifications. it determines those compactification which are universal with respect to some algebric or topological properties. as an application of the theory, it is i...