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That is, we allow the algorithm to start with a completely random label configuration.
(3) Assign a random label to each block at the top level to form an initial label configuration.
It should be noted that, at lower resolution levels, a random label that is not assigned to any site can be included as a candidate in order to encourage small regions to emerge.
To estimate window level FDRs, a null distribution of random label permutation pseudo median scored windows was created.
Instead of a sliding window, normalized probe intensities falling within the exons of each gene model were compared using the pseudo median and random label statistics.
For the LOO procedure, we used the random label reshuffling crossval function in PR-tools.
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The significance of departure from randomness was assessed by random labeling performing 1000-time simulatoons to establish upper and lower confidence limits.
Oligonucleotide probe for detection was synthesized by random labeling of GFP gene with DIG-labeled nucleotides.
Probes were radioactive labelled with αP-CTP (Amersham) using Rediprime Random Labelling Kit (Amersham), including spermine precipitation of labelled DNA (Feinberg and Vogelstein, 1984).
Both probes were gel purified and labeled with a Rediprime II random labeling kit (Amersham) with 50 μCi of αP-labeled-dCTP.
The novel method employs the two-step process (Figure 1): 1) preparation of 89Zr-labeled p-isothiocyanato-benzyl-desferrioxamine (89Zr-DBN) and 2) random labeling of primary amines of cell surface proteins with 89Zr-DBN.
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