Literature DB >> 15904339

Divergence and Shannon information in genomes.

Hong-Da Chen1, Chang-Heng Chang, Li-Ching Hsieh, Hoong-Chien Lee.   

Abstract

Shannon information (SI) and its special case, divergence, are defined for a DNA sequence in terms of probabilities of chemical words in the sequence and are computed for a set of complete genomes highly diverse in length and composition. We find the following: SI (but not divergence) is inversely proportional to sequence length for a random sequence but is length independent for genomes; the genomic SI is always greater and, for shorter words and longer sequences, hundreds to thousands times greater than the SI in a random sequence whose length and composition match those of the genome; genomic SIs appear to have word-length dependent universal values. The universality is inferred to be an evolution footprint of a universal mode for genome growth.

Entities:  

Mesh:

Substances:

Year:  2005        PMID: 15904339     DOI: 10.1103/PhysRevLett.94.178103

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  6 in total

1.  Universal global imprints of genome growth and evolution--equivalent length and cumulative mutation density.

Authors:  Hong-Da Chen; Wen-Lang Fan; Sing-Guan Kong; Hoong-Chien Lee
Journal:  PLoS One       Date:  2010-04-14       Impact factor: 3.240

2.  Applying Shannon's information theory to bacterial and phage genomes and metagenomes.

Authors:  Sajia Akhter; Barbara A Bailey; Peter Salamon; Ramy K Aziz; Robert A Edwards
Journal:  Sci Rep       Date:  2013-01-08       Impact factor: 4.379

3.  Kullback Leibler divergence in complete bacterial and phage genomes.

Authors:  Sajia Akhter; Ramy K Aziz; Mona T Kashef; Eslam S Ibrahim; Barbara Bailey; Robert A Edwards
Journal:  PeerJ       Date:  2017-11-30       Impact factor: 2.984

Review 4.  Information theory applications for biological sequence analysis.

Authors:  Susana Vinga
Journal:  Brief Bioinform       Date:  2013-09-20       Impact factor: 11.622

5.  Information Theory in Computational Biology: Where We Stand Today.

Authors:  Pritam Chanda; Eduardo Costa; Jie Hu; Shravan Sukumar; John Van Hemert; Rasna Walia
Journal:  Entropy (Basel)       Date:  2020-06-06       Impact factor: 2.524

6.  Inverse symmetry in complete genomes and whole-genome inverse duplication.

Authors:  Sing-Guan Kong; Wen-Lang Fan; Hong-Da Chen; Zi-Ting Hsu; Nengji Zhou; Bo Zheng; Hoong-Chien Lee
Journal:  PLoS One       Date:  2009-11-09       Impact factor: 3.240

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.