Widespread existence of uncorrelated probe intensities from within the same probeset on Affymetrix GeneChips

@article{SanchezGraillet2008WidespreadEO,
  title={Widespread existence of uncorrelated probe intensities from within the same probeset on Affymetrix GeneChips},
  author={Olivia Sanchez-Graillet and Joanna Rowsell and William B. Langdon and Maria A. Stalteri and Jose M. Arteaga-Salas and Graham J. G. Upton and Andrew P. Harrison},
  journal={Journal of integrative bioinformatics},
  year={2008},
  volume={5 2}
}
We have developed a computational pipeline to analyse large surveys of Affymetrix GeneChips, for example NCBI's Gene Expression Omnibus. GEO samples data for many organisms, tissues and phenotypes. Because of this experimental diversity, any observed correlations between probe intensities can be associated either with biology that is robust, such as common co-expression, or with systematic biases associated with the GeneChip technology. Our bioinformatics pipeline integrates the mapping of… CONTINUE READING