A computer program for predicting possible cytotoxic T lymphocyte epitopes based on HLA class I peptide-binding motifs
Identifieur interne : 004106 ( Main/Exploration ); précédent : 004105; suivant : 004107A computer program for predicting possible cytotoxic T lymphocyte epitopes based on HLA class I peptide-binding motifs
Auteurs : Joe D'Amaro [Pays-Bas] ; Jos G. A. Houbiers [Pays-Bas] ; Jan W. Drijfhout [Pays-Bas] ; Remco M. P. Brandt [Pays-Bas] ; Ronald Schipper [Pays-Bas] ; Jan N. Bouwes Bavinck [Pays-Bas] ; Cornelis J. M. Melief [Pays-Bas] ; W. Martin Kast [Pays-Bas]Source :
- Human Immunology [ 0198-8859 ] ; 1995.
English descriptors
- Teeft :
- Actual binding affinities, Adoptive transfer, Binder, Binding affinities, Binding peptides, Blood bank, Calculation mode, Coefficient, Computer program, Ctls, Cytotoxic, Default name, Drijfhout, Early protein, Human immunology, Human papillomavirus type, Immunol, Kast, Late protein sequences, Lethal virus infections, Lymphocyte, Major histocompatibility, Melief, Motif, Motif definition, Motif definitions, Motif program, Multiplication mode, Peptide, Peptide binding, Potential binding peptides, Proc nat1 acad, Protein sequence, Protein sequences, Target protein, Tumor growth, Vaccination, Validation study, Virus infections.
Abstract
Abstract: Vaccination with peptides recognized by antigen-specific CTLs can prevent lethal virus infections and tumor growth. In order to avoid the synthesis and testing of the numerous overlapping peptides of long AA sequences of proteins of interest, we developed a computer program which utilizes the rules, “motifs” which govern how peptides bind to HLA class I molecules, to derive a predicted binding score for each overlapping peptide. Correlations between the predicted and actual binding results to HLA-A∗0201 for 100 peptides selected from six early and two late protein sequences of human papilloma-virus type la revealed an acceptable level (61%) of concordance. The program is very flexible with regard to the input of protein sequences and motif definitions and is able to handle various motif and peptide lengths.
Url:
DOI: 10.1016/0198-8859(94)00153-H
Affiliations:
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P." last="Brandt">Remco M. P. Brandt</name><affiliation wicri:level="3"><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>From the Department of Immunohematology and Blood Bank, University Hospital Leiden, Leiden</wicri:regionArea><placeName><settlement type="city">Leyde</settlement><region nuts="2" type="province">Hollande-Méridionale</region></placeName></affiliation></author><author><name sortKey="Schipper, Ronald" sort="Schipper, Ronald" uniqKey="Schipper R" first="Ronald" last="Schipper">Ronald Schipper</name><affiliation wicri:level="3"><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>From the Department of Immunohematology and Blood Bank, University Hospital Leiden, Leiden</wicri:regionArea><placeName><settlement type="city">Leyde</settlement><region nuts="2" type="province">Hollande-Méridionale</region></placeName></affiliation></author><author><name sortKey="Bouwes Bavinck, Jan N" sort="Bouwes Bavinck, Jan N" uniqKey="Bouwes Bavinck J" first="Jan N." last="Bouwes Bavinck">Jan N. Bouwes Bavinck</name><affiliation wicri:level="3"><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>From the Department of Immunohematology and Blood Bank, University Hospital Leiden, Leiden</wicri:regionArea><placeName><settlement type="city">Leyde</settlement><region nuts="2" type="province">Hollande-Méridionale</region></placeName></affiliation></author><author><name sortKey="Melief, Cornelis J M" sort="Melief, Cornelis J M" uniqKey="Melief C" first="Cornelis J. M." last="Melief">Cornelis J. M. Melief</name><affiliation wicri:level="3"><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>From the Department of Immunohematology and Blood Bank, University Hospital Leiden, Leiden</wicri:regionArea><placeName><settlement type="city">Leyde</settlement><region nuts="2" type="province">Hollande-Méridionale</region></placeName></affiliation></author><author><name sortKey="Kast, W Martin" sort="Kast, W Martin" uniqKey="Kast W" first="W. Martin" last="Kast">W. Martin Kast</name><affiliation wicri:level="3"><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>From the Department of Immunohematology and Blood Bank, University Hospital Leiden, Leiden</wicri:regionArea><placeName><settlement type="city">Leyde</settlement><region nuts="2" type="province">Hollande-Méridionale</region></placeName></affiliation></author></analytic><monogr></monogr><series><title level="j">Human Immunology</title><title level="j" type="abbrev">HIM</title><idno type="ISSN">0198-8859</idno><imprint><publisher>ELSEVIER</publisher><date type="published" when="1995">1995</date><biblScope unit="volume">43</biblScope><biblScope unit="issue">1</biblScope><biblScope unit="page" from="13">13</biblScope><biblScope unit="page" to="18">18</biblScope></imprint><idno type="ISSN">0198-8859</idno></series></biblStruct></sourceDesc><seriesStmt><idno type="ISSN">0198-8859</idno></seriesStmt></fileDesc><profileDesc><textClass><keywords scheme="Teeft" xml:lang="en"><term>Actual binding affinities</term><term>Adoptive transfer</term><term>Binder</term><term>Binding affinities</term><term>Binding peptides</term><term>Blood bank</term><term>Calculation mode</term><term>Coefficient</term><term>Computer program</term><term>Ctls</term><term>Cytotoxic</term><term>Default name</term><term>Drijfhout</term><term>Early protein</term><term>Human immunology</term><term>Human papillomavirus type</term><term>Immunol</term><term>Kast</term><term>Late protein sequences</term><term>Lethal virus infections</term><term>Lymphocyte</term><term>Major histocompatibility</term><term>Melief</term><term>Motif</term><term>Motif definition</term><term>Motif definitions</term><term>Motif program</term><term>Multiplication mode</term><term>Peptide</term><term>Peptide binding</term><term>Potential binding peptides</term><term>Proc nat1 acad</term><term>Protein sequence</term><term>Protein sequences</term><term>Target protein</term><term>Tumor growth</term><term>Vaccination</term><term>Validation study</term><term>Virus infections</term></keywords></textClass><langUsage><language ident="en">en</language></langUsage></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Abstract: Vaccination with peptides recognized by antigen-specific CTLs can prevent lethal virus infections and tumor growth. In order to avoid the synthesis and testing of the numerous overlapping peptides of long AA sequences of proteins of interest, we developed a computer program which utilizes the rules, “motifs” which govern how peptides bind to HLA class I molecules, to derive a predicted binding score for each overlapping peptide. Correlations between the predicted and actual binding results to HLA-A∗0201 for 100 peptides selected from six early and two late protein sequences of human papilloma-virus type la revealed an acceptable level (61%) of concordance. The program is very flexible with regard to the input of protein sequences and motif definitions and is able to handle various motif and peptide lengths.</div></front></TEI><affiliations><list><country><li>Pays-Bas</li></country><region><li>Hollande-Méridionale</li></region><settlement><li>Leyde</li></settlement></list><tree><country name="Pays-Bas"><region name="Hollande-Méridionale"><name sortKey="D Amaro, Joe" sort="D Amaro, Joe" uniqKey="D Amaro J" first="Joe" last="D'Amaro">Joe D'Amaro</name></region><name sortKey="Bouwes Bavinck, Jan N" sort="Bouwes Bavinck, Jan N" uniqKey="Bouwes Bavinck J" first="Jan N." last="Bouwes Bavinck">Jan N. Bouwes Bavinck</name><name sortKey="Brandt, Remco M P" sort="Brandt, Remco M P" uniqKey="Brandt R" first="Remco M. P." last="Brandt">Remco M. P. Brandt</name><name sortKey="Drijfhout, Jan W" sort="Drijfhout, Jan W" uniqKey="Drijfhout J" first="Jan W." last="Drijfhout">Jan W. Drijfhout</name><name sortKey="Houbiers, Jos G A" sort="Houbiers, Jos G A" uniqKey="Houbiers J" first="Jos G. A." last="Houbiers">Jos G. A. Houbiers</name><name sortKey="Kast, W Martin" sort="Kast, W Martin" uniqKey="Kast W" first="W. Martin" last="Kast">W. Martin Kast</name><name sortKey="Melief, Cornelis J M" sort="Melief, Cornelis J M" uniqKey="Melief C" first="Cornelis J. M." last="Melief">Cornelis J. M. Melief</name><name sortKey="Schipper, Ronald" sort="Schipper, Ronald" uniqKey="Schipper R" first="Ronald" last="Schipper">Ronald Schipper</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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