A model for nucleotide sequences

investigating the feasibility of a proposed model for geometric design of deployable arch structures

deployable scissor type structures are composed of the so-called scissor-like elements (sles), which are connected to each other at an intermediate point through a pivotal connection and allow them to be folded into a compact bundle for storage or transport. several sles are connected to each other in order to form units with regular polygonal plan views. the sides and radii of the polygons are...

Mutation model for nucleotide sequences based on crystal basis.

A nucleotide sequence is identified, using a two (four)-letter alphabet, by the the labels of a vector state of an irreducible representation of Uq-->0(sl(2)) (Uq-->0(sl(2) plus sign in circle sl(2))). A master equation for the distribution function is written, where the intensity of the one-spin flip is assumed to depend on the variation of the labels of the state. In the two-letter approximat...

Nucleotide sequences in DNA

Inverted and mirror repeats in model nucleotide sequences.

We analytically and numerically study the probabilistic properties of inverted and mirror repeats in model sequences of nucleic acids. We consider both perfect and nonperfect repeats, i.e., repeats with mismatches and gaps. The considered sequence models are independent identically distributed (i.i.d.) sequences, Markov processes and long-range sequences. We show that the number of repeats in c...

A statistical model for investigating binding probabilities of DNA nucleotide sequences using microarrays.

There is considerable scientific interest in knowing the probability that a site-specific transcription factor will bind to a given DNA sequence. Microarray methods provide an effective means for assessing the binding affinities of a large number of DNA sequences as demonstrated by Bulyk et al. (2001, Proceedings of the National Academy of Sciences, USA 98, 7158-7163) in their study of the DNA-...