The DNA from a Coding Perspective
The DNA from a Coding Perspective
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从编码角度看 DNA
DOI：
10.1007/978-3-319-54729-9_12
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发表时间：
2018
期刊：
影响因子：
--
通讯作者：
Patrick Sobetzko
中科院分区：
文献类型：
--
作者：
Werner Henkel;Georgi Muskhelishvili;Dawit Nigatu;Patrick Sobetzko
该项目的总体目标是通过使用信息论、编码和通信工具以及分子遗传学方法来调查和理解DNA中的编码结构。密码子编码结构和可能的突变被模拟为一个通信通道，以调查和获得关于密码子到氨基酸映射的更清晰的视图。此外，在DNA中观察到的原理被转化为技术信源编码方法。Lemple和Ziv在1977和1978年以及Welch在1984年提出的通用信源编码算法实际上与真核生物中已知的选择性剪接有一些相似之处，这进一步增加了蛋白质编码的可变性。因此，通过采用双向读取过程来修改算法。另一个主要重点是对DNA作为携带两种(数字和模拟)信息的双重编码装置的全面描述，以及这种能力的生物学意义。特别是，关于遗传功能的调节，研究了DNA的数字和模拟编码特性的相互依赖。为此，研究了细菌染色体中基因的空间顺序以及DNA热力学稳定性和超螺旋密度的基因组梯度的作用。该分析是关于时空基因表达模式和熵(Shannon和Gibbs)分布的变化进行的。此外，在野生Typee中探索了DNA结构和瞬时染色体结构-功能域(TSFDs)的组织在协调基因组表达与环境变化中的作用。在缺乏染色体形成因素的突变体中，以及在植物病原菌D中也是如此。达旦提。
The general aim of the project was to investigate and understand the coding structure in the DNA by using information theoretic, coding, and communication tools along with molecular genetics approaches. The codon encoding structure and possible mutations are modeled as a communication channel to investigate and obtain a clearer view on the codon to amino acid mappings. In addition, principles observed in the DNA are transferred into technical source coding methods. The universal source coding algorithms proposed by Lemple and Ziv in 1977 and 1978 and by Welch in 1984 actually show some similarity to alternative splicing known from eukaryotes which further increases the variability in protein encoding. Thus, the algorithms are modified by employing bi-directional reading procedures. The other main focus is on the comprehensive description of DNA as a dual coding device carrying two (digital and analog) types of information and on the biological meaning of this capacity. In particular, the interdependence of digital and analog coding properties of the DNA is studied with regard to regulation of genetic function. To this end, the role of the spatial order of genes and the genomic gradients of DNA thermodynamic stability and superhelical density in the bacterial chromosome is investigated. The analysis is performed with regard to alterations of spatiotemporal gene expression patterns and entropy (Shannon and Gibbs) profiles. Furthermore, the role of the DNA configuration and the organization of transient chromosomal structural-functional domains (TSFDs) in coordinating genomic expression with environmental changes is explored in wild typeE. colicells and in mutants lacking the chromosome-shaping factors, as well as in the plant pathogenic bacteriumD. dadantii.
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影响因子：
--
作者：
Patrick Sobetzko;M. Glinkowska;A. Travers;G. Muskhelishvili
通讯作者：
Patrick Sobetzko;M. Glinkowska;A. Travers;G. Muskhelishvili
来自秩序的秩序：时空遗传程序如何编码在细菌染色体的二维遗传图中
影响因子：
1.2
作者：
G. Muskhelishvili;A. Travers
通讯作者：
A. Travers
DNA 代码的句法和语义特性的整合揭示了染色体作为将能量转化为信息的热力学机器
影响因子：
8
作者：
G. Muskhelishvili;A. Travers
通讯作者：
A. Travers
影响因子：
6.4
作者：
Jiang X;Sobetzko P;Nasser W;Reverchon S;Muskhelishvili G
通讯作者：
Muskhelishvili G
DNA信息：从数字代码到模拟结构
DOI：
10.1098/rsta.2011.0231
发表时间：
2012
期刊：
Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences
影响因子：
--
作者：
A. A. Travers;G. Muskhelishvili;And J M T Thompson
通讯作者：
And J M T Thompson