"Hook"-calibration of GeneChip-microarrays: chip characteristics and expression measures.

ABSTRACT:

Background

Microarray experiments rely on several critical steps that may introduce biases and uncertainty in downstream analyses. These steps include mRNA sample extraction, amplification and labelling, hybridization, and scanning causing chip-specific systematic variations on the raw intensity level. Also the chosen array-type and the up-to-dateness of the genomic information probed on the chip affect the quality of the expression measures. In the accompanying publication we presented theory and algorithm of the so-called hook method which aims at correcting expression data for systematic biases using a series of new chip characteristics.

Results

In this publication we summarize the essential chip characteristics provided by this method, analyze special benchmark experimen

SUBMITTER: Binder H 

PROVIDER: S-EPMC2543012 | biostudies-literature | 2008 Aug

REPOSITORIES: biostudies-literature