Highly conserved and associated HIV-1 CTL and T-Helper epitopes in global HIV-1 population: potential candidates for multi-epitope HIV-1 vaccine
Page 648
Abstract
Human Immunodeficiency Virus (HIV-1), one of the fastest evolving organisms, is a leading cause of death in the world today. But regardless of isolated stories about HIV cure in one patient and a modest success in a clinical vaccine trial, a perfect vaccine that can give total protection or a drug for a complete cure still remains intangible. Epitope vaccines have been suggested as a strategy to counteract viral escape and development of drug resistance. Multiple studies have shown that Cytotoxic T-Lymphocyte (CTL) and T-Helper (Th) epitopes can generate strong immune responses in HIV-1. However, not much is known about the relationship among different types of HIV-1 epitopes, particularly those epitopes that can be considered potential candidates for inclusion in the multi-epitope vaccines. In this study we used association rule mining to examine relationship between different types of epitopes (CTL, Th and Antibody epitopes) from nine protein-coding HIV-1 genes. Our results identified 137 association rules that were consistently present in the majority of reference and non-reference HIV-1 genomes from worldwide HIV-1 population and included epitopes of two different types (CTL and Th) from three different genes (Gag, Pol and Nef). These epitope association rules involved 14 non-overlapping epitope regions that frequently co-occurred despite high mutation and recombination rates of HIV-1, including genomes of circulating recombinant forms. These epitope regions were also highly conserved at both the amino acid and nucleotide levels indicating strong purifying selection driven by functional and/or structural constraints and hence, the diminished likelihood of successful escape mutations. Thus, these associated epitopes should be considered as potent candidates for inclusion in multi-epitope vaccines.
- Highly conserved and associated HIV-1 CTL and T-Helper epitopes in global HIV-1 population: potential candidates for multi-epitope HIV-1 vaccine
Recommendations
Coarse-Grained Modeling of the HIV---1 Protease Binding Mechanisms: II. Folding Inhibition
Computational Intelligence Methods for Bioinformatics and BiostatisticsEvolutionary and structurally conserved fragments 24---34 and 83---93 from each of the HIV---1 protease (HIV---1 PR) monomers constitute the critical components of the HIV---1 PR folding nucleus. It has been recently discovered that the peptide with the ...
Comments
Information & Contributors
Information
Published In
August 2010
705 pages
ISBN:9781450304382
DOI:10.1145/1854776
- General Chairs:
- Aidong Zhang,
- Mark Borodovsky,
- Program Chairs:
- Gultekin Ozsoyoglu,
- Armin Mikler
Copyright © 2010 ACM.
Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than ACM must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected]
Sponsors
Publisher
Association for Computing Machinery
New York, NY, United States
Publication History
Published: 02 August 2010
Check for updates
Qualifiers
- Research-article
Conference
BCB'10
Sponsor:
BCB'10: ACM International Conference on Bioinformatics and Computational Biology
August 2 - 4, 2010
New York, Niagara Falls
Acceptance Rates
Overall Acceptance Rate 254 of 885 submissions, 29%
Contributors
Other Metrics
Bibliometrics & Citations
Bibliometrics
Article Metrics
- 0Total Citations
- 44Total Downloads
- Downloads (Last 12 months)0
- Downloads (Last 6 weeks)0
Reflects downloads up to 17 Jan 2025
Other Metrics
Citations
View Options
Login options
Check if you have access through your login credentials or your institution to get full access on this article.
Sign in