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Báo cáo y học: " Correlation between nucleotide composition and folding energy of coding sequences with special attention to wobble bases"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học quốc tế cung cấp cho các bạn kiến thức về ngành y đề tài: " Correlation between nucleotide composition and folding energy of coding sequences with special attention to wobble bases | Theoretical Biology and Medical Modelling BioMed Central Research Correlation between nucleotide composition and folding energy of coding sequences with special attention to wobble bases Jan C Biro Open Access Address Homulus Foundation - 612 S Flower Str. 1220 Los Angeles CA 90017 USA Email Jan C Biro - jan.biro@att.net Published 29 July 2008 Received 16 July 2008 Theoretical Biology and Medical Modelling 2008 5 14 doi 10.1186 1742-4682-5-14 Accepted 29 July 2008 This article is available from http www.tbiomed.cOm content 5 1 14 2008 Biro licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License http creativecommons.org licenses by 2.0 which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. Abstract Background The secondary structure and complexity of mRNA influences its accessibility to regulatory molecules proteins micro-RNAs its stability and its level of expression. The mobile elements of the RNA sequence the wobble bases are expected to regulate the formation of structures encompassing coding sequences. Results The sequence folding energy FE relationship was studied by statistical bioinformatic methods in 90 CDS containing 26 370 codons. I found that the FE dG associated with coding sequences is significant and negative 407 kcal 1000 bases mean S.E.M. indicating that these sequences are able to form structures. However the FE has only a small free component less than 10 of the total. The contribution of the 1st and 3rd codon bases to the FE is larger than the contribution of the 2nd central bases. It is possible to achieve a 4-fold change in FE by altering the wobble bases in synonymous codons. The sequence FE relationship can be described with a simple algorithm and the total FE can be predicted solely from the sequence composition of the nucleic acid. The contributions of different synonymous codons to the FE are .