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Kinetic model of probe hydrolysis takes into account signal change due to the side processes.
Removing the thermodynamics-based calibration model of probe properties causes the performance of the Abdueva et al. model [4] to degrade; its R2 dropped to 0.843 and slope dropped to 0.53.
A two-way ANOVA model of probe values can be used to test for differential gene expression [ 8].
The model of probe (1) in complex with LPS was constructed using Accelrys Discovery Studio v 2.1 (Accelrys, San Diego, CA).
Low levels of sequence similarity across families were allowed selectively, when the statistical model of probe hybridization used in our array analysis predicted a low likelihood of cross-hybridization.
CHARM data was transformed by taking the residuals of a linear model of probe fold change information and neuronal proportion for each locus, followed by DMR identification and quantification using the CHARM package standard functions.
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The CLiMax algorithm (composite likelihood maximization) is based on a biophysical model of probe-target hybridization.
Specifically, the RMA model of probe-specific background correction was first applied to the PM (perfect match) probes.
Specifically, expression values were computed by applying the RMA model of probe-specific correction of perfect match probes.
Specifically, expression values were computed from raw CEL files by first applying the RMA model of probe-specific correction of PM (perfect match) probes.
It incorporates a probabilistic model of probe-target hybridization based on probe-target similarity and probe sequence complexity, with parameters fitted to experimental data from samples with known genome sequences.
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