Calculational methods for electrophoretic cleavage pattern analysis of DNA

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For quantitative analysis of high resolution gel electrophoresis data it is necessary to consider the position effect, i. e. the dependence of each band intensity on its position on the gel. The relative cleavage rates of DNA phosphodiester bonds in all 16 possible steps (calculated using quantitative data on electrophoretic patterns of DNA fragments cleavage) were estimated using two methods: a) Linearly Weighted Moving Average; b) polyno-mial built by the least-square method. The values obtained for cleavage rates for different dinucleotides were simi-lar regardless of particular method.

Keywords: electrophoresis, DNA cleavage, Physical mapping of DNA structure
Citation in English: Golovkin M.V., Nechipurenko D.Y., Il’icheva I.A., Panchenko L.A., Polozov R.V., Grokhovsky S.L., Nechipurenko Y.D. Calculational methods for electrophoretic cleavage pattern analysis of DNA // Computer Research and Modeling, 2009, vol. 1, no. 3, pp. 287-295
Citation in English: Golovkin M.V., Nechipurenko D.Y., Il’icheva I.A., Panchenko L.A., Polozov R.V., Grokhovsky S.L., Nechipurenko Y.D. Calculational methods for electrophoretic cleavage pattern analysis of DNA // Computer Research and Modeling, 2009, vol. 1, no. 3, pp. 287-295
DOI: 10.20537/2076-7633-2009-1-3-287-295
According to Crossref, this article is cited by:
  • Yurii Dmitrievich Nechipurenko, Dmitrii Yurievich Nechipurenko, Irina Alekseevna Il’icheva, Mikhail Viktorovich Golovkin, Larisa Andreevna Panchenko, Robert Valentinovich Polozov, Sergey L’vovich Grokhovsky. DNA conformational dynamics: approach to the physical mapping of genome. // Computer Research and Modeling. 2010. — V. 2, no. 4. — P. 419. DOI: 10.20537/2076-7633-2010-2-4-419-428
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