Результаты поиска по 'electrostatics of DNA':
Найдено статей: 2
  1. Temlyakova E.A., Dzhelyadin T.R., Kamzolova S.G., Sorokin A.A.
    System to store DNA physical properties profiles with application to the promoters of Escherichia coli

    Computer Research and Modeling, 2013, v. 5, no. 3, pp. 443-450

    Database to store, search and retrieve DNA physical properties profiles has been developed and its use for analysis of E. coli promoters has been demonstrated. Unique feature of the database is in its ability to handle whole profile as single internal object type in a way similar to integers or character strings. To demonstrate utility of such database it was populated with data of 1227 known promoters, their nucleotide sequence, profile of electrostatic potential, transcription factor binding sites. Each promoter is also connected to all genes, whose transcription is controlled by that promoter. Content of the database is available for search via web interface. Source code of profile datatype and library to work with it from R/Bioconductor are available from the internet, dump of the database is available from authors by request.

    Keywords: E. coli, electrostatic potential of DNA, database, signal analysis.
    Views (last year): 3.
  2. 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, v. 7, no. 2, pp. 347-359

    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.
    Views (last year): 3.

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