Misunderstandings about isochores. Part 1

G Bernardi - Gene, 2001 - Elsevier
A few months ago the International Human Genome Sequencing Consortium (IHGSC)
published a 61-page paper on the human genome (IHGSC, Nature 409 (2001) 860). Here …

Reconsidering the significance of genomic word frequencies

M Csűrös, L Noé, G Kucherov - Trends in Genetics, 2007 - cell.com
By conventional wisdom, a feature that occurs too often or too rarely in a genome can
indicate a functional element. To infer functionality from frequency, it is crucial to precisely …

Study of statistical correlations in DNA sequences

P Bernaola-Galván, P Carpena, R Román-Roldán… - Gene, 2002 - Elsevier
Here we present a study of statistical correlations among different positions in DNA
sequences and their implications by directly using the autocorrelation function. Such an …

Universal noise, crossovers of scaling exponents, and chromosome-specific patterns of guanine-cytosine content in DNA sequences of the human genome

W Li, D Holste - Physical Review E—Statistical, Nonlinear, and Soft …, 2005 - APS
Spatial fluctuations of guanine and cytosine base content (GC%) are studied by spectral
analysis for the complete set of human genomic DNA sequences. We find that (i) 1∕ f α …

A model for sedimentation in inhomogeneous media. I. Dynamic density gradients from sedimenting co-solutes

P Schuck - Biophysical chemistry, 2004 - Elsevier
Macromolecular sedimentation in inhomogeneous media is of great practical importance.
Dynamic density gradients have a long tradition in analytical ultracentrifugation, and are …

Information measure for long-range correlated sequences: the case of the 24 human chromosomes

A Carbone - Scientific reports, 2013 - nature.com
A new approach to estimate the Shannon entropy of a long-range correlated sequence is
proposed. The entropy is written as the sum of two terms corresponding respectively to …

Quantifying intrachromosomal GC heterogeneity in prokaryotic genomes

P Bernaola-Galván, JL Oliver, P Carpena, O Clay… - Gene, 2004 - Elsevier
The sequencing of prokaryotic genomes covering a wide taxonomic range has sparked
renewed interest in intrachromosomal compositional (GC) heterogeneity, largely in view of …

Are isochore sequences homogeneous?

W Li - Gene, 2002 - Elsevier
Three statistical/mathematical analyses are carried out on isochore sequences: spectral
analysis, analysis of variance, and segmentation analysis. Spectral analysis shows that …

Prediction of prokaryotic and eukaryotic promoters based on information-theoretic features

X Liu, L Teng, Y Luo, Y Xu - Biosystems, 2023 - Elsevier
Promoters are DNA regulatory elements located near the transcription start site and are
responsible for regulating the transcription of genes. DNA fragments arranged in a certain …

Predicting essential genes of 37 prokaryotes by combining information-theoretic features

X Liu, Y Luo, T He, M Ren, Y Xu - Journal of Microbiological Methods, 2021 - Elsevier
Essential genes are required for the reproduction and survival of an organism. Rapid
identification of essential genes has practical application value in biomedicine. Information …