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

Predicting HIV-1 coreceptor usage with sequence analysis.

Mark A Jensen1, Angélique B van 't Wout

  • 1Department of Microbiology, Box 358070, University of Washington School of Medicine, Seattle, WA 98195-8070, USA.

AIDS Reviews
|July 25, 2003
PubMed
Summary

Bioinformatics tools now predict HIV-1 biological changes using genetic variation. Advanced methods analyze the V3 loop to understand viral evolution and improve treatment strategies.

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

Effects of Tuina in Patients With Chronic Nonspecific Low Back Pain: A Randomized Controlled Trial.

Journal of primary care & community health·2025
Same author

Transforming Cancer Nanotechnology Data Analysis and User Experience. Part II: Providing Future Solutions Using Large Language Models.

Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology·2025
Same author

Transforming Cancer Nanotechnology Data Analysis and User Experience. Part I: Current Challenges and Solutions Provided by caNanoLab.

Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology·2025
Same author

Feasibility and effectiveness of the novel HemoClear microfiltration cell-salvage system in cesarean sections in South Africa.

International journal of gynaecology and obstetrics: the official organ of the International Federation of Gynaecology and Obstetrics·2025
Same author

TLR7/8 Activation in Immune Cells and Muscle by RNA-Containing Immune Complexes: Role in Inflammation and the Pathogenesis of Myositis.

Arthritis & rheumatology (Hoboken, N.J.)·2024
Same author

CD11b suppresses TLR7-driven inflammatory signaling to protect against lupus nephritis.

bioRxiv : the preprint server for biology·2024

Area of Science:

  • Bioinformatics
  • Virology
  • Genetics

Background:

  • Genetic variation in HIV-1 influences biological phenotype, including coreceptor usage and cell tropism.
  • The third variable (V3) loop of the viral envelope is a key determinant of HIV-1 phenotype, with specific amino acids affecting syncytium-inducing capacity and coreceptor usage.

Purpose of the Study:

  • To review recently developed bioinformatics methods for analyzing HIV-1 genetic variability.
  • To demonstrate the use of these methods in predicting biological phenotype from sequence information.
  • To discuss the application of V3 loop sequence scoring in understanding HIV-1 evolution and pathogenesis.

Main Methods:

  • Analysis of genetic variation in HIV-1 using bioinformatics approaches.
  • Development and application of methods to predict viral phenotype from sequence data.
  • Scoring of V3 loop sequences to interpret evolutionary shifts and their relationship to pathogenesis.

Main Results:

  • Identified novel changes in the V3 loop, beyond positions 11 and 25, that impact HIV-1 phenotype.
  • Significantly enhanced the ability to predict viral phenotype from genotype using sequence information.
  • Developed methods to score V3 sequences on a continuous scale, aiding in the interpretation of evolutionary dynamics.

Conclusions:

  • Advances in computational approaches have improved the prediction and understanding of HIV-1 biological phenotype evolution.
  • Further development of these methods, including analysis of regions outside the V3 loop and diverse HIV-1 clades, will enhance understanding of pathogenesis and inform treatment strategies.

Related Experiment Videos