This article is cited in 4 papers

Bioinformatics

Software Package aSHAPE as a Tool to Study the Spatial Conformation of the Bacterial Genome Sites

V. V. Panyukov^a, N. N. Nazipova^a, O. N. Ozoline<sup>b

a</sup> Institute of Mathematical Problems of Biology, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russian Federation
^b Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russian Federation

Abstract: The paper describes an interactive package aSHAPE capable to reveal common features and conformational peculiarities in the families of three-dimensional models of the DNA double helices. An applicability of aSHAPE to characterize promoter regions in the genome of Escherichia coli has been demonstrated.

Key words: conformational chain, deformation, discriminant analysis, partitioning function, DNA double helix, promoter.

UDC: (577.214.625+004.93):519.688

Received 01.08.2011, Published 19.08.2011