Exploration of peptides bound to MHC class I molecules in melanoma.
Identifieur interne : 001711 ( PubMed/Corpus ); précédent : 001710; suivant : 001712Exploration of peptides bound to MHC class I molecules in melanoma.
Auteurs : Antonia L. Pritchard ; Marcus L. Hastie ; Michelle Neller ; Jeffrey J. Gorman ; Chris W. Schmidt ; Nicholas K. HaywardSource :
- Pigment cell & melanoma research [ 1755-148X ] ; 2015.
English descriptors
- KwdEn :
- Algorithms, Amino Acid Sequence, Antibodies (metabolism), Antigens, Neoplasm (metabolism), Cell Line, Tumor, Epitopes, Gene Expression Regulation, Neoplastic, Histocompatibility Antigens Class I (metabolism), Humans, Immunity, Mass Spectrometry, Melanoma (genetics), Melanoma (immunology), Molecular Sequence Data, Peptides (chemistry), Peptides (isolation & purification), Peptides (metabolism), Protein Binding, Protein Processing, Post-Translational, RNA, Messenger (genetics), RNA, Messenger (metabolism), Reproducibility of Results, Subcellular Fractions (metabolism).
- MESH :
- chemical , chemistry : Peptides.
- chemical , genetics : RNA, Messenger.
- chemical , isolation & purification : Peptides.
- chemical , metabolism : Antibodies, Antigens, Neoplasm, Histocompatibility Antigens Class I, Peptides, RNA, Messenger.
- genetics : Melanoma.
- immunology : Melanoma.
- metabolism : Subcellular Fractions.
- Algorithms, Amino Acid Sequence, Cell Line, Tumor, Epitopes, Gene Expression Regulation, Neoplastic, Humans, Immunity, Mass Spectrometry, Molecular Sequence Data, Protein Binding, Protein Processing, Post-Translational, Reproducibility of Results.
Abstract
Advancements in high-resolution HPLC and mass spectrometry have reinvigorated the application of this technology to identify peptides eluted from immunopurified MHC class I molecules. Three melanoma cell lines were assessed using w6/32 isolation, peptide elution and HPLC purification; peptides were identified by mass spectrometry. A total of 13,829 peptides were identified; 83-87% of these were 8-11 mers. Only approximately 15% have been described before. Subcellular locations of the source proteins showed even sampling; mRNA expression and total protein length were predictive of the number of peptides detected from a single protein. HLA-type binding prediction for 10,078 9/10 mer peptides assigned 88-95% to a patient-specific HLA subtype, revealing a disparity in strength of predicted binding. HLA-B*27-specific isolation successfully identified some peptides not found using w6/32. Sixty peptides were selected for immune screening, based on source protein and predicted HLA binding; no new peptides recognized by antimelanoma T cells were discovered. Additionally, mass spectrometry was unable to identify several epitopes targeted ex vivo by one patient's T cells.
DOI: 10.1111/pcmr.12357
PubMed: 25645385
Links to Exploration step
pubmed:25645385Le document en format XML
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Gorman</name></author><author><name sortKey="Schmidt, Chris W" sort="Schmidt, Chris W" uniqKey="Schmidt C" first="Chris W" last="Schmidt">Chris W. Schmidt</name></author><author><name sortKey="Hayward, Nicholas K" sort="Hayward, Nicholas K" uniqKey="Hayward N" first="Nicholas K" last="Hayward">Nicholas K. Hayward</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2015">2015</date><idno type="RBID">pubmed:25645385</idno><idno type="pmid">25645385</idno><idno type="doi">10.1111/pcmr.12357</idno><idno type="wicri:Area/PubMed/Corpus">001711</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001711</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Exploration of peptides bound to MHC class I molecules in melanoma.</title><author><name sortKey="Pritchard, Antonia L" sort="Pritchard, Antonia L" uniqKey="Pritchard A" first="Antonia L" last="Pritchard">Antonia L. Pritchard</name><affiliation><nlm:affiliation>Oncogenomics Research Group, QIMR Berghofer Medical Research Institute, Herston, Brisbane, Qld, Australia.</nlm:affiliation></affiliation></author><author><name sortKey="Hastie, Marcus L" sort="Hastie, Marcus L" uniqKey="Hastie M" first="Marcus L" last="Hastie">Marcus L. Hastie</name></author><author><name sortKey="Neller, Michelle" sort="Neller, Michelle" uniqKey="Neller M" first="Michelle" last="Neller">Michelle Neller</name></author><author><name sortKey="Gorman, Jeffrey J" sort="Gorman, Jeffrey J" uniqKey="Gorman J" first="Jeffrey J" last="Gorman">Jeffrey J. Gorman</name></author><author><name sortKey="Schmidt, Chris W" sort="Schmidt, Chris W" uniqKey="Schmidt C" first="Chris W" last="Schmidt">Chris W. Schmidt</name></author><author><name sortKey="Hayward, Nicholas K" sort="Hayward, Nicholas K" uniqKey="Hayward N" first="Nicholas K" last="Hayward">Nicholas K. Hayward</name></author></analytic><series><title level="j">Pigment cell & melanoma research</title><idno type="eISSN">1755-148X</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Algorithms</term><term>Amino Acid Sequence</term><term>Antibodies (metabolism)</term><term>Antigens, Neoplasm (metabolism)</term><term>Cell Line, Tumor</term><term>Epitopes</term><term>Gene Expression Regulation, Neoplastic</term><term>Histocompatibility Antigens Class I (metabolism)</term><term>Humans</term><term>Immunity</term><term>Mass Spectrometry</term><term>Melanoma (genetics)</term><term>Melanoma (immunology)</term><term>Molecular Sequence Data</term><term>Peptides (chemistry)</term><term>Peptides (isolation & purification)</term><term>Peptides (metabolism)</term><term>Protein Binding</term><term>Protein Processing, Post-Translational</term><term>RNA, Messenger (genetics)</term><term>RNA, Messenger (metabolism)</term><term>Reproducibility of Results</term><term>Subcellular Fractions (metabolism)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Peptides</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Messenger</term></keywords><keywords scheme="MESH" type="chemical" qualifier="isolation & purification" xml:lang="en"><term>Peptides</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Antibodies</term><term>Antigens, Neoplasm</term><term>Histocompatibility Antigens Class I</term><term>Peptides</term><term>RNA, Messenger</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Melanoma</term></keywords><keywords scheme="MESH" qualifier="immunology" xml:lang="en"><term>Melanoma</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Subcellular Fractions</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Algorithms</term><term>Amino Acid Sequence</term><term>Cell Line, Tumor</term><term>Epitopes</term><term>Gene Expression Regulation, Neoplastic</term><term>Humans</term><term>Immunity</term><term>Mass Spectrometry</term><term>Molecular Sequence Data</term><term>Protein Binding</term><term>Protein Processing, Post-Translational</term><term>Reproducibility of Results</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Advancements in high-resolution HPLC and mass spectrometry have reinvigorated the application of this technology to identify peptides eluted from immunopurified MHC class I molecules. Three melanoma cell lines were assessed using w6/32 isolation, peptide elution and HPLC purification; peptides were identified by mass spectrometry. A total of 13,829 peptides were identified; 83-87% of these were 8-11 mers. Only approximately 15% have been described before. Subcellular locations of the source proteins showed even sampling; mRNA expression and total protein length were predictive of the number of peptides detected from a single protein. HLA-type binding prediction for 10,078 9/10 mer peptides assigned 88-95% to a patient-specific HLA subtype, revealing a disparity in strength of predicted binding. HLA-B*27-specific isolation successfully identified some peptides not found using w6/32. Sixty peptides were selected for immune screening, based on source protein and predicted HLA binding; no new peptides recognized by antimelanoma T cells were discovered. Additionally, mass spectrometry was unable to identify several epitopes targeted ex vivo by one patient's T cells.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25645385</PMID><DateCompleted><Year>2016</Year><Month>01</Month><Day>05</Day></DateCompleted><DateRevised><Year>2015</Year><Month>04</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1755-148X</ISSN><JournalIssue CitedMedium="Internet"><Volume>28</Volume><Issue>3</Issue><PubDate><Year>2015</Year><Month>May</Month></PubDate></JournalIssue><Title>Pigment cell & melanoma research</Title><ISOAbbreviation>Pigment Cell Melanoma Res</ISOAbbreviation></Journal><ArticleTitle>Exploration of peptides bound to MHC class I molecules in melanoma.</ArticleTitle><Pagination><MedlinePgn>281-94</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/pcmr.12357</ELocationID><Abstract><AbstractText>Advancements in high-resolution HPLC and mass spectrometry have reinvigorated the application of this technology to identify peptides eluted from immunopurified MHC class I molecules. Three melanoma cell lines were assessed using w6/32 isolation, peptide elution and HPLC purification; peptides were identified by mass spectrometry. A total of 13,829 peptides were identified; 83-87% of these were 8-11 mers. Only approximately 15% have been described before. Subcellular locations of the source proteins showed even sampling; mRNA expression and total protein length were predictive of the number of peptides detected from a single protein. HLA-type binding prediction for 10,078 9/10 mer peptides assigned 88-95% to a patient-specific HLA subtype, revealing a disparity in strength of predicted binding. HLA-B*27-specific isolation successfully identified some peptides not found using w6/32. Sixty peptides were selected for immune screening, based on source protein and predicted HLA binding; no new peptides recognized by antimelanoma T cells were discovered. Additionally, mass spectrometry was unable to identify several epitopes targeted ex vivo by one patient's T cells.</AbstractText><CopyrightInformation>© 2015 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Pritchard</LastName><ForeName>Antonia L</ForeName><Initials>AL</Initials><AffiliationInfo><Affiliation>Oncogenomics Research Group, QIMR Berghofer Medical Research Institute, Herston, Brisbane, Qld, Australia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hastie</LastName><ForeName>Marcus L</ForeName><Initials>ML</Initials></Author><Author ValidYN="Y"><LastName>Neller</LastName><ForeName>Michelle</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Gorman</LastName><ForeName>Jeffrey J</ForeName><Initials>JJ</Initials></Author><Author ValidYN="Y"><LastName>Schmidt</LastName><ForeName>Chris W</ForeName><Initials>CW</Initials></Author><Author ValidYN="Y"><LastName>Hayward</LastName><ForeName>Nicholas K</ForeName><Initials>NK</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2015</Year><Month>03</Month><Day>05</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Pigment Cell Melanoma Res</MedlineTA><NlmUniqueID>101318927</NlmUniqueID><ISSNLinking>1755-1471</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D000906">Antibodies</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D000951">Antigens, Neoplasm</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D000939">Epitopes</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D015395">Histocompatibility Antigens Class I</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance 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