Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips

@inproceedings{Shi2010OptimizingTN,
  title={Optimizing the noise versus bias trade-off for Illumina whole genome expression BeadChips},
  author={Wei Shi and Alicia Oshlack and Gordon K Smyth},
  booktitle={Nucleic acids research},
  year={2010}
}
Five strategies for pre-processing intensities from Illumina expression BeadChips are assessed from the point of view of precision and bias. The strategies include a popular variance stabilizing transformation and model-based background corrections that either use or ignore the control probes. Four calibration data sets are used to evaluate precision, bias and false discovery rate (FDR). The original algorithms are shown to have operating characteristics that are not easily comparable. Some… CONTINUE READING

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