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To explain the effect of non-specific targets observed in experiments with cDNA samples, we introduced two effects: non-specific hybridization and bulk hybridization.
To focus on significantly similar samples, we introduced the cut-off threshold C. If the sample similarity J Sa, Sx is smaller than the cut-off threshold C, J′ Sa,Sx is set to 0. On the other hand, if J Sa,Sx is larger than C, J′ Sa,Sx = (J′ Sa,Sx − C /(1 − C), so that the range of sample-to-sample similarity J′ Sa,Sx becomes 0 to 1.
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To distinguish between underlying population distributions and estimated distributions fitted to samples, we introduce the following notation.
To deal with the problem of degrading the classifiers using mis-aligned samples, we introduce the saliency detection method to our tracking problem.
To adapt this method to our particular problem depending on the number of samples, we introduce a degree parameter, β.
To facilitate the comparison of different transcription levels between samples, we introduce the nucleotide activity per kilobase of exon model per million mapped reads (NPKM) value as single nucleotide-resolution measure of transcriptional activity (see Methods).
Here are more types of survey data except the case (simple random sample) we introduced before.
First, in addition to constant time bin sampling, we introduced a conditional sampling based on keeping the number of spikes constant in each sample.
To decrease the morbidity and mortality risks associated with multiple sampling, we introduced fluorescence-controlled stereotaxy in our department [ 4]; additional cases were published in support of the concept by others [ 8].
When the monkey performed > 90% with two sample stimuli, we introduced the morphed sample variants, first including the eight additional sample variants for which there was a correct response, and finally introducing one additional sample variant which putatively consisted of equal parts of the pair of photographic images, and for which choices made for that image were rewarded randomly (the AS).
Because the model input data were extremely unbalanced between ignition and nonignition samples, we also introduced a cost-sensitivity analysis into the RF model (RF-cost sensitive) in addition to the standard RF model (RF-original).
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