The DNA from a Coding Perspective

从编码角度看 DNA

基本信息

批准号：
328529227
负责人：
Professor Dr.-Ing. Werner Henkel
金额：
--
依托单位：
Department of Computer Science and Electrical Engineering
依托单位国家：
德国
项目类别：
Research Grants
财政年份：
2017
资助国家：
德国
起止时间：
2016-12-31 至 2022-12-31
项目状态：
已结题

来源：
https://gepris.dfg.de/gepris/projekt/328529227?language=en
关键词：
DNA Coding Perspective

项目摘要

The prospect of DNA has changed over the last decade from a solely digitally coded sequence to a digital entity with analog characteristics. These analog characteristics stem from the physical properties of the DNA polymer. The four different bases not only codein certain combination for proteins but at the same time also assign physical and information theoretic properties like entropy, thermodynamic stability, or specific 3D conformations to the polymer. These physical or information theoretic properties are fundamental for the regulation of gene expression. This dual coding of proteins and DNA structure is largely independent due to the redundancy of the protein coding and structural coding. In the previous project we were able to show that genes are strategically positioned on the bacterial chromosome to utilize DNA properties of distinct chromosomal regions to differentiate temporal gene expression patterns. Furthermore, we realized some aspects that allows for some unequal error protection that we would now make the center of investigations, of course, still investigating the links between analog and digital information, since this is essential for the considered coding anyhow, but otherwise looking into the different levels of unequal error protection, starting from the mapping between codons and amino acids, over memory along the DNA strands modeled by Markov models or context trees, up to the regulatory Networks interpreted as a code graph. To this end, we can profit from our experiences in UEP coding and our basis in the understanding of the analog and digital properties of the DNA.

在过去的十年中，DNA的前景从完全编码的序列变为具有模拟特征的数字实体。这些模拟特征源于DNA聚合物的物理特性。这四个不同的基础不仅是蛋白质的某些组合，而且同时还分配了物理和信息理论特性，例如熵，热力学稳定性或对聚合物的特定3D构象。这些物理或信息理论特性对于调节基因表达至关重要。由于蛋白质编码和结构编码的冗余，蛋白质和DNA结构的双重编码在很大程度上是独立的。在上一个项目中，我们能够证明基因在细菌染色体上具有策略性位置，以利用不同染色体区域的DNA特性来区分时间基因表达模式。 Furthermore, we realized some aspects that allows for some unequal error protection that we would now make the center of investigations, of course, still investigating the links between analog and digital information, since this is essential for the considered coding anyhow, but otherwise looking into the different levels of unequal error protection, starting from the mapping between codons and amino acids, over memory along the DNA strands modeled by Markov models or context trees, up to the regulatory Networks interpreted as代码图。为此，我们可以从UEP编码的经验以及对DNA的模拟和数字属性的理解中获利。

项目成果

期刊论文数量（7）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Multilevel capacities for the codon mutation channel

密码子突变通道的多级能力

DOI：
10.1109/istc.2018.8625354
发表时间：
2018
期刊：
2018 IEEE 10th International Symposium on Turbo Codes & Iterative Information Processing (ISTC)
影响因子：
0
作者：
Dawit Nigatu;Werner Henkel
通讯作者：
Werner Henkel

Computational Identification of Essential Genes in Prokaryotes and Eukaryotes