Web-based design and evaluation of T-cell vaccine candidates
Identifieur interne : 002A14 ( Main/Exploration ); précédent : 002A13; suivant : 002A15Web-based design and evaluation of T-cell vaccine candidates
Auteurs : James Thurmond [États-Unis] ; Hyejin Yoon [États-Unis] ; Carla Kuiken [États-Unis] ; Karina Yusim [États-Unis] ; Simon Perkins [États-Unis] ; James Theiler [États-Unis] ; Tanmoy Bhattacharya [États-Unis] ; Bette Korber [États-Unis] ; Will Fischer [États-Unis]Source :
- Bioinformatics [ 1367-4803 ] ; 2008.
Descripteurs français
- KwdFr :
- Algorithmes, Antigènes (), Conception de médicament, Déterminants antigéniques des lymphocytes T (), Humains, Infections à VIH (), Infections à VIH (virologie), Internet, Logiciel, Lymphocytes T (métabolisme), Ordinateurs, Technologie pharmaceutique (instrumentation), VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (génétique), VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (immunologie), Vaccins (), Vaccins contre le SIDA (), Épitopes ().
- MESH :
- génétique : VIH-1 (Virus de l'Immunodéficience Humaine de type 1).
- immunologie : VIH-1 (Virus de l'Immunodéficience Humaine de type 1).
- métabolisme : Lymphocytes T.
- virologie : Infections à VIH.
- Algorithmes, Antigènes, Conception de médicament, Déterminants antigéniques des lymphocytes T, Humains, Infections à VIH, Internet, Logiciel, Ordinateurs, Technologie pharmaceutique, Vaccins, Vaccins contre le SIDA, Épitopes.
English descriptors
- KwdEn :
- AIDS Vaccines (chemistry), Algorithms, Antigens (chemistry), Computers, Drug Design, Epitopes (chemistry), Epitopes, T-Lymphocyte (chemistry), HIV Infections (prevention & control), HIV Infections (virology), HIV-1 (genetics), HIV-1 (immunology), Humans, Internet, Software, T-Lymphocytes (metabolism), Technology, Pharmaceutical (instrumentation), Vaccines (chemistry).
- MESH :
- chemical , chemistry : AIDS Vaccines, Antigens, Epitopes, Epitopes, T-Lymphocyte, Vaccines.
- genetics : HIV-1.
- immunology : HIV-1.
- instrumentation : Technology, Pharmaceutical.
- metabolism : T-Lymphocytes.
- prevention & control : HIV Infections.
- virology : HIV Infections.
- Algorithms, Computers, Drug Design, Humans, Internet, Software.
Abstract
Summary: We present a suite of on-line tools to design candidate vaccine proteins, and to assess antigen potential, using coverage of k-mers (as proxies for potential T-cell epitopes) as a metric. The vaccine design tool uses the recently published ‘mosaic’ method to generate protein sequences optimized for coverage of high-frequency k-mers; the coverage-assessment tools facilitate coverage comparisons for any potential antigens. To demonstrate these tools, we designed mosaic protein sets for B-clade HIV-1 Gag, Pol and Nef, and compared them to antigens used in a recent human vaccine trial. Availability: http://hiv.lanl.gov/content/sequence/MOSAIC/ Contact: wfischer@lanl.gov Supplementary information: Supplementary data are available at ftp://ftp-t10.lanl.gov/pub/btk/WebToolsData
Url:
DOI: 10.1093/bioinformatics/btn251
Affiliations:
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to="1640">1640</biblScope></imprint><idno type="ISSN">1367-4803</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">1367-4803</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>AIDS Vaccines (chemistry)</term><term>Algorithms</term><term>Antigens (chemistry)</term><term>Computers</term><term>Drug Design</term><term>Epitopes (chemistry)</term><term>Epitopes, T-Lymphocyte (chemistry)</term><term>HIV Infections (prevention & control)</term><term>HIV Infections (virology)</term><term>HIV-1 (genetics)</term><term>HIV-1 (immunology)</term><term>Humans</term><term>Internet</term><term>Software</term><term>T-Lymphocytes (metabolism)</term><term>Technology, Pharmaceutical (instrumentation)</term><term>Vaccines (chemistry)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Algorithmes</term><term>Antigènes ()</term><term>Conception de médicament</term><term>Déterminants antigéniques des lymphocytes T ()</term><term>Humains</term><term>Infections à VIH ()</term><term>Infections à VIH (virologie)</term><term>Internet</term><term>Logiciel</term><term>Lymphocytes T (métabolisme)</term><term>Ordinateurs</term><term>Technologie pharmaceutique (instrumentation)</term><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (génétique)</term><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1) (immunologie)</term><term>Vaccins ()</term><term>Vaccins contre le SIDA ()</term><term>Épitopes ()</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>AIDS Vaccines</term><term>Antigens</term><term>Epitopes</term><term>Epitopes, T-Lymphocyte</term><term>Vaccines</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>HIV-1</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1)</term></keywords><keywords scheme="MESH" qualifier="immunologie" xml:lang="fr"><term>VIH-1 (Virus de l'Immunodéficience Humaine de type 1)</term></keywords><keywords scheme="MESH" qualifier="immunology" xml:lang="en"><term>HIV-1</term></keywords><keywords scheme="MESH" qualifier="instrumentation" xml:lang="en"><term>Technology, Pharmaceutical</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>T-Lymphocytes</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Lymphocytes T</term></keywords><keywords scheme="MESH" qualifier="prevention & control" xml:lang="en"><term>HIV Infections</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Infections à VIH</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>HIV Infections</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Algorithms</term><term>Computers</term><term>Drug Design</term><term>Humans</term><term>Internet</term><term>Software</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Algorithmes</term><term>Antigènes</term><term>Conception de médicament</term><term>Déterminants antigéniques des lymphocytes T</term><term>Humains</term><term>Infections à VIH</term><term>Internet</term><term>Logiciel</term><term>Ordinateurs</term><term>Technologie pharmaceutique</term><term>Vaccins</term><term>Vaccins contre le SIDA</term><term>Épitopes</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract">Summary: We present a suite of on-line tools to design candidate vaccine proteins, and to assess antigen potential, using coverage of k-mers (as proxies for potential T-cell epitopes) as a metric. The vaccine design tool uses the recently published ‘mosaic’ method to generate protein sequences optimized for coverage of high-frequency k-mers; the coverage-assessment tools facilitate coverage comparisons for any potential antigens. To demonstrate these tools, we designed mosaic protein sets for B-clade HIV-1 Gag, Pol and Nef, and compared them to antigens used in a recent human vaccine trial. Availability: http://hiv.lanl.gov/content/sequence/MOSAIC/ Contact: wfischer@lanl.gov Supplementary information: Supplementary data are available at ftp://ftp-t10.lanl.gov/pub/btk/WebToolsData</div></front></TEI><affiliations><list><country><li>États-Unis</li></country></list><tree><country name="États-Unis"><noRegion><name sortKey="Thurmond, James" sort="Thurmond, James" uniqKey="Thurmond J" first="James" last="Thurmond">James Thurmond</name></noRegion><name sortKey="Bhattacharya, Tanmoy" sort="Bhattacharya, Tanmoy" uniqKey="Bhattacharya T" first="Tanmoy" last="Bhattacharya">Tanmoy Bhattacharya</name><name sortKey="Fischer, Will" sort="Fischer, Will" uniqKey="Fischer W" first="Will" last="Fischer">Will Fischer</name><name sortKey="Korber, Bette" sort="Korber, Bette" uniqKey="Korber B" first="Bette" last="Korber">Bette Korber</name><name sortKey="Kuiken, Carla" sort="Kuiken, Carla" uniqKey="Kuiken C" first="Carla" last="Kuiken">Carla Kuiken</name><name sortKey="Perkins, Simon" sort="Perkins, Simon" uniqKey="Perkins S" first="Simon" last="Perkins">Simon Perkins</name><name sortKey="Theiler, James" sort="Theiler, James" uniqKey="Theiler J" first="James" last="Theiler">James Theiler</name><name sortKey="Yoon, Hyejin" sort="Yoon, Hyejin" uniqKey="Yoon H" first="Hyejin" last="Yoon">Hyejin Yoon</name><name sortKey="Yusim, Karina" sort="Yusim, Karina" uniqKey="Yusim K" first="Karina" last="Yusim">Karina Yusim</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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