Yuan et al. [5] employed a Hidden Markov Model (HMM) to characterize positioned or delocalized nucleosomes.
To gain a better understanding of the sequence patterns that characterize positioned nucleosomes, we first performed an analysis of the periodicities of the 256 tetranucleotides in a yeast genome-wide library of nucleosomal DNA sequences that was prepared by in vitro reconstitution.
In contrast to simple sequence motifs of fixed length, i.e. position specific scoring matrices, pHMMs are suited for identifying motifs that are interrupted by segments of variable length, and are used to characterize position-specific sequence similarities within a family of proteins.
Note that the information content varies between 0 and 4.2 bits and signifies the overall sequence conservation for a particular cluster, while the sequence logo characterizes position specific residue conservation.
To test whether the upstream leader region of fhlA facilitates the interaction with OxyS and Hfq as previously described for the rpoS-DsrA system [23], the leader sequence of fhlA was extended from the previously characterized position −53 relative to the start codon, to −136 and −220 respectively.
He will begin trying to build enthusiasm among some of the voters who propelled him to victory in 2008, like college students, while Democratic strategists are considering ways to turn the increased prominence of the Tea Party movement to their advantage by characterizing positions taken by some Tea Party-backed Republican candidates as extreme.
Accelerations of the dominant upper limb were recorded, with variance (SD of mean position) and power spectrum analysis used to characterize limb position control.
We will characterize the position of the filament by a thickness-averaged (i.e., mean) position and represent it as a point in ψ, ϕ coordinates.
We characterize the position value for network situations along the lines of the characterization of the Shapley value by Shapley (1953).
"Governor, don't try to characterize my position," Mr. Romney said.
"I would characterize the position the administration is taking as being one of indifference and a strong desire of not wanting to get involved," Mr. Graham said.
