Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Base compositional structure of genomes.

J W Fickett1, D C Torney, D R Wolf

  • 1Theoretical Biology and Biophysics Group, Los Alamos National Laboratory, New Mexico 87545.

Genomics
|August 1, 1992
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Preliminary implementation of new data mining techniques for the analysis of simulation data from Genetic Analysis Workshop 12: problem 2.

Genetic epidemiology·2002
Same author

Discovery of association rules in medical data.

Medical informatics and the Internet in medicine·2001
Same author

An assessment of gene prediction accuracy in large DNA sequences.

Genome research·2000
Same author

Human-mouse genome comparisons to locate regulatory sites.

Nature genetics·2000
Same author

Discovery and modeling of transcriptional regulatory regions.

Current opinion in biotechnology·2000
Same author

Frequent alternative splicing of human genes.

Genome research·1999
Same journal

Integrating transcriptomics and metabolomics reveals the molecular landscape of sperm maturation driven by regional differentiation in the epididymis of Guizhou-Guiqian semi-fine wool sheep.

Genomics·2026
Same journal

Impact of genotype on histopathology and clinical characters in a Chinese cohort with obstructive hypertrophic cardiomyopathy.

Genomics·2026
Same journal

A novel reusable transcriptome-wide association study workflow used to map key genes linked to important cattle traits.

Genomics·2026
Same journal

The large mitochondrial genome of Syndiclis anlungensis (Lauraceae): Genome structure, comparative analysis, and phylogenetic relationships with other Syndiclis species.

Genomics·2026
Same journal

DeepGEP: Deep learning for gene expression prediction from multi-omics in mammals.

Genomics·2026
Same journal

Molecular features of external Auditory Canal cholesteatoma by microbial metagenomic sequencing.

Genomics·2026
See all related articles

This study models human and E. coli genomes, revealing distinct regional base composition patterns. Findings suggest a new random walk model for DNA sequence analysis, improving computational efficiency.

Area of Science:

  • Genomics
  • Computational Biology
  • Bioinformatics

Background:

  • Understanding genome compositional structure is crucial for deciphering biological functions.
  • Existing stochastic models do not fully capture the observed regional variations in base composition within genomes.

Purpose of the Study:

  • To model the base compositional structure of human and Escherichia coli genomes.
  • To quantify regional variations and persistence of base composition.
  • To propose refined stochastic models for genome analysis.

Main Methods:

  • Quantification of strand-symmetric base composition tendencies.
  • Analysis of regional base composition variation.
  • Modeling of local base composition persistence using stochastic processes.

Related Experiment Videos

  • Review and refinement of multidomain stochastic models.

    • Main Results:

    • Identified significant strand-symmetry in base composition across both genomes.
    • Observed base composition variation exceeding predictions from standard homogeneous stochastic models.
    • Demonstrated persistence of local base composition over kilobases (E. coli) and tens of kilobases (human).
    • Proposed a random walk model with small steps for A+T content variation, outperforming large quantum jump models.

    Conclusions:

    • Genome base composition exhibits complex regional properties not fully explained by simple stochastic models.
    • A random walk model offers a more accurate representation of A+T content variation.
    • The refined models can enhance computational efficiency in large-scale sequence assembly.