tailieunhanh - Báo cáo hóa học: " Research Article Identifying Statistical Dependence in Genomic Sequences via Mutual Information Estimates"

Tham khảo luận văn - đề án 'báo cáo hóa học: " research article identifying statistical dependence in genomic sequences via mutual information estimates"', luận văn - báo cáo phục vụ nhu cầu học tập, nghiên cứu và làm việc hiệu quả | Hindawi Publishing Corporation EURASIP Journal on Bioinformatics and Systems Biology Volume 2007 Article ID 14741 11 pages doi 2007 14741 Research Article Identifying Statistical Dependence in Genomic Sequences via Mutual Information Estimates Hasan Metin Aktulga 1 Ioannis Kontoyiannis 2 L. Alex Lyznik 3 Lukasz Szpankowski 4 Ananth Y. Grama 1 and Wojciech Szpankowski1 1 Department of Computer Science Purdue University West Lafayette IN 47907 USA 2 Department of Informatics Athens University of Economics Business Patission 76 10434 Athens Greece 3 Pioneer Hi-Breed International Johnston IA USA 4 Bioinformatics Program University of California San Diego CA 92093 USA Received 26 February 2007 Accepted 25 September 2007 Recommended by Petri Myllymaki Questions of understanding and quantifying the representation and amount of information in organisms have become a central part of biological research as they potentially hold the key to fundamental advances. In this paper we demonstrate the use of information-theoretic tools for the task of identifying segments of biomolecules DNA or RNA that are statistically correlated. We develop a precise and reliable methodology based on the notion of mutual information for finding and extracting statistical as well as structural dependencies. A simple threshold function is defined and its use in quantifying the level of significance of dependencies between biological segments is explored. These tools are used in two specific applications. First they are used for the identification of correlations between different parts of the maize zmSRp32 gene. There we find significant dependencies between the 5 untranslated region in zmSRp32 and its alternatively spliced exons. This observation may indicate the presence of as-yet unknown alternative splicing mechanisms or structural scaffolds. Second using data from the FBI s combined DNA index system CODIS we demonstrate that our approach is particularly well suited for the problem of .