Compositional structure of the genome: a review

P Bernaola-Galván, P Carpena, C Gómez-Martín… - Biology, 2023 - mdpi.com
Simple Summary DNA structural biology deals with the understanding of DNA and three-
dimensional chromatin structure, which can determine its function in the cell. The key …

A comparative study and a phylogenetic exploration of the compositional architectures of mammalian nuclear genomes

E Elhaik, D Graur - PLoS Computational Biology, 2014 - journals.plos.org
For the past four decades the compositional organization of the mammalian genome posed
a formidable challenge to molecular evolutionists attempting to explain it from an …

Different clustering of genomes across life using the ATCG and degenerate RY alphabets: early and late signaling on genome evolution?

V Kirzhner, A Paz, Z Volkovich, E Nevo… - Journal of Molecular …, 2007 - Springer
In this study, we have calculated distances between genomes based on our previously
developed compositional spectra (CS) analysis. The study was conducted using genomes of …

Genome-scale compositional comparisons in noncoding regions of eukaryotes

L Rong, Q Zhen, Z Xiaopeng, L Lunjiang… - … xue yu Sheng wu wu li …, 2002 - europepmc.org
By using four methods (histogram, chaos game representation, discrepancy of distance and
discrepancy of entropy) at genomic level, the composition of short oligonucleotides and their …

Assessment of compositional heterogeneity within and between eukaryotic genomes

A Nekrutenko, WH Li - Genome Research, 2000 - genome.cshlp.org
Using large amounts of long genomic sequences, we studied the compositional patterns of
eukaryotic genomes. We developed a simple measure, the compositional heterogeneity (or …

Investigating the relationship between genome structure, composition, and ecology in prokaryotes

P Lio - Molecular biology and evolution, 2002 - academic.oup.com
Our thesis is that the DNA composition and structure of genomes are selected in part by
mutation bias (GC pressure) and in part by ecology. To illustrate this point, we compare and …

Compositional compartmentalization and gene composition in the genome of vertebrates

D Mouchiroud, G Fichant, G Bernardi - Journal of molecular evolution, 1987 - Springer
The compositional distribution of coding sequences from five vertebrates (Xenopus, chicken,
mouse, rat, and human) is shifted toward higher GC values compared to that of the DNA …

The isochores as a fundamental level of genome structure and organization: a general overview

M Costantini, H Musto - Journal of molecular evolution, 2017 - Springer
The recent availability of a number of fully sequenced genomes (including marine
organisms) allowed to map very precisely the isochores, based on DNA sequences …

Diversity of genome organisation

A Budd - … : Statistical and Computational Methods, Volume 1, 2012 - Springer
Genomes can be organised in different ways. Understanding the extent of the diversity of
genome organisation, the processes that create it, and its consequences is particularly …

[HTML][HTML] Structural genomics: correlation blocks, population structure, and genome architecture

XS Hu, FC Yeh, Z Wang - Current Genomics, 2011 - ncbi.nlm.nih.gov
An integration of the pattern of genome-wide inter-site associations with evolutionary forces
is important for gaining insights into the genomic evolution in natural or artificial populations …