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The collection of sites was then used to generate a position frequency scoring matrix.
Nr2e1 binding sites containing sequences extracted from the literature and used to generate a position weight matrix.
The thin film characterization data is used to generate a position axis from the piezo-drive voltage and to correct for variations in the two-photon response at different positions of the temporal focus.
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I-TASSER then uses this BLAST result to generate a position-specific scoring matrix (PSSM or profile) using sequences with an E value lower than the threshold (0.005 is the default).
The coordinates for staurosporine in PI3KCγ (RCSB, PDB 1e8z) were used to generate a starting position for NVP-BEZ235 in TOR.
To generate a limb position matching score (LPM) that would be comparable across groups, inter-limb matching error for each CVA participant was normalized to the average inter-limb matching error from the healthy control group (see Appendix 2).
In the discrete teaching phase, a probabilistic model based on the elite learners and the best learner is used to generate a series of position sequences, and the concept of consensus permutation is employed to replace the mean individual in the teaching-learning based optimization (TLBO) algorithm.
Movements of the fluorescent beads were analyzed using the automatic spots-tracking module of the Imaris software package (Bitplane, Inc). to generate a set of position lists.
Therefore, to tract potential differences between the GlnR and TnrA binding motifs, we used the conserved GlnR-binding sites upstream of the promoter to generate a family specific position frequency matrix (see methods).
The movements of the fluorescent particles were analyzed using the automatic spots-tracking module of the Imaris software package to generate a set of position lists (Bitplane Inc., Zurich, Switzerland).
Next, the diffraction-limited spots are fit using a Gaussian mask algorithm (Thompson et al., 2002) to generate a list of positions.
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