Detection of promoter and non-promoter E.coli sequences by analysis of their electrostatic profiles

Temlyakova E.A., Sorokin A.A.
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The article is devoted to the idea of using physical properties of DNA instead of sequence along for the aspect of accurate search and annotation of various prokaryotic genomic regions. Particulary, the possibility to use electrostatic potential distribution around DNA sequence as a classifier for identification of a few functional DNA regions was demonstrated. A number of classification models was built providing discrimination of promoters and non-promoter regions (random sequences, coding regions and promoter-like sequences) with accuracy value about 83–85%. The most valueable regions for the discrimination were determined and expected to play a certain role in the process of DNA-recognition by RNA-polymerase.

Keywords: electrostatics of DNA, promoter location, PLS–DA, VIP-analysis
Citation in English: Temlyakova E.A., Sorokin A.A. Detection of promoter and non-promoter E.coli sequences by analysis of their electrostatic profiles // Computer Research and Modeling, 2015, vol. 7, no. 2, pp. 347-359
Citation in English: Temlyakova E.A., Sorokin A.A. Detection of promoter and non-promoter E.coli sequences by analysis of their electrostatic profiles // Computer Research and Modeling, 2015, vol. 7, no. 2, pp. 347-359
DOI: 10.20537/2076-7633-2015-7-2-347-359
URL: http://crm-en.ics.org.ru/journal/article/2269/
Creative Commons License This work is licensed under a Creative Commons Attribution-NoDerivs 3.0 Unported License.
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