Loading…
The Use of Plasma Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Proteomic Patterns for Detection of Head and Neck Squamous Cell Cancers
Purpose: Our study was undertaken to determine the utility of plasma proteomic profiling using surface-enhanced laser desorption/ionization time-of-flight (SELDI-TOF) mass spectrometry for the detection of head and neck squamous cell carcinomas (HNSCCs). Experimental Design: Pretreatment plasma samp...
Saved in:
Published in: | Clinical cancer research 2004-07, Vol.10 (14), p.4806-4812 |
---|---|
Main Authors: | , , , , , |
Format: | Article |
Language: | English |
Subjects: | |
Citations: | Items that this one cites Items that cite this one |
Online Access: | Get full text |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
cited_by | cdi_FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523 |
---|---|
cites | cdi_FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523 |
container_end_page | 4812 |
container_issue | 14 |
container_start_page | 4806 |
container_title | Clinical cancer research |
container_volume | 10 |
creator | SOLTYS, Scott G LE, Quynh-Thu SHI, Gongyi TIBSHIRANI, Robert GIACCIA, A. J KOONG, Albert C |
description | Purpose: Our study was undertaken to determine the utility of plasma proteomic profiling using surface-enhanced laser desorption/ionization
time-of-flight (SELDI-TOF) mass spectrometry for the detection of head and neck squamous cell carcinomas (HNSCCs).
Experimental Design: Pretreatment plasma samples from HNSCC patients or controls without known neoplastic disease were analyzed on the Protein
Biology System IIc SELDI-TOF mass spectrometer (Ciphergen Biosystems, Fremont, CA). Proteomic spectra of mass:charge ratio
( m / z ) were generated by the application of plasma to immobilized metal-affinity-capture (IMAC) ProteinChip arrays activated with
copper. A total of 37,356 data points were generated for each sample. A training set of spectra from 56 cancer patients and
52 controls were applied to the “Lasso” technique to identify protein profiles that can distinguish cancer from noncancer,
and cross-validation was used to determine test errors in this training set. The discovery pattern was then used to classify
a separate masked test set of 57 cancer and 52 controls. In total, we analyzed the proteomic spectra of 113 cancer patients
and 104 controls.
Results: The Lasso approach identified 65 significant data points for the discrimination of normal from cancer profiles. The discriminatory
pattern correctly identified 39 of 57 HNSCC patients and 40 of 52 noncancer controls in the masked test set. These results
yielded a sensitivity of 68% and specificity of 73%. Subgroup analyses in the test set of four different demographic factors
(age, gender, and cigarette and alcohol use) that can potentially confound the interpretation of the results suggest that
this model tended to overpredict cancer in control smokers.
Conclusions: Plasma proteomic profiling with SELDI-TOF mass spectrometry provides moderate sensitivity and specificity in discriminating
HNSCC. Further improvement and validation of this approach is needed to determine its usefulness in screening for this disease. |
doi_str_mv | 10.1158/1078-0432.CCR-03-0469 |
format | article |
fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_66731028</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>66731028</sourcerecordid><originalsourceid>FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523</originalsourceid><addsrcrecordid>eNpNkUFv1DAQhSMEoqXwE0C-gMQhrR073uSI0pZWWmDFbs_WxB6TQBJvbUeo_CH-Jk53EZzmHb6ZeXovy14zes5YWV0wuqpyKnhx3jRfc8qTlvWT7JSV5SrnhSyfJv2XOclehPCdUiYYFc-zE1YWsmalPM1-7zokdwGJs2QzQBiBbGdvQWN-NXUwaTRkDQE9ucTg_D72brq4dVP_CxZJdv2IubP59dB_6yL5BCGQ7R519G7E6B_IxruIbuw12UCM6KdArFuuxQQtF9LjGwRDYDLkM-ofZHs_w-jmQBocBtIsHnx4mT2zMAR8dZxn2d311a65yddfPt42H9a5FkzG3Ja1BWhthWg0RSopWMPassbWWKgK4EANtUIKoSuLUNsWTMsNrWllRFnws-zd4e7eu_sZQ1RjH3QyAhMmT0rKFWe0qBJYHkDtXQgerdr7fgT_oBhVS0NqSV8t6avUkKJcLQ2lvTfHB3M7ovm3dawkAW-PAAQNg_UpgD78x9UrseKLgfcHrkvJ_-w9Kv0YlceA4HX36EMoUVHJ_wBP9auR</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>66731028</pqid></control><display><type>article</type><title>The Use of Plasma Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Proteomic Patterns for Detection of Head and Neck Squamous Cell Cancers</title><source>Freely Accessible Science Journals - check A-Z of ejournals</source><creator>SOLTYS, Scott G ; LE, Quynh-Thu ; SHI, Gongyi ; TIBSHIRANI, Robert ; GIACCIA, A. J ; KOONG, Albert C</creator><creatorcontrib>SOLTYS, Scott G ; LE, Quynh-Thu ; SHI, Gongyi ; TIBSHIRANI, Robert ; GIACCIA, A. J ; KOONG, Albert C</creatorcontrib><description>Purpose: Our study was undertaken to determine the utility of plasma proteomic profiling using surface-enhanced laser desorption/ionization
time-of-flight (SELDI-TOF) mass spectrometry for the detection of head and neck squamous cell carcinomas (HNSCCs).
Experimental Design: Pretreatment plasma samples from HNSCC patients or controls without known neoplastic disease were analyzed on the Protein
Biology System IIc SELDI-TOF mass spectrometer (Ciphergen Biosystems, Fremont, CA). Proteomic spectra of mass:charge ratio
( m / z ) were generated by the application of plasma to immobilized metal-affinity-capture (IMAC) ProteinChip arrays activated with
copper. A total of 37,356 data points were generated for each sample. A training set of spectra from 56 cancer patients and
52 controls were applied to the “Lasso” technique to identify protein profiles that can distinguish cancer from noncancer,
and cross-validation was used to determine test errors in this training set. The discovery pattern was then used to classify
a separate masked test set of 57 cancer and 52 controls. In total, we analyzed the proteomic spectra of 113 cancer patients
and 104 controls.
Results: The Lasso approach identified 65 significant data points for the discrimination of normal from cancer profiles. The discriminatory
pattern correctly identified 39 of 57 HNSCC patients and 40 of 52 noncancer controls in the masked test set. These results
yielded a sensitivity of 68% and specificity of 73%. Subgroup analyses in the test set of four different demographic factors
(age, gender, and cigarette and alcohol use) that can potentially confound the interpretation of the results suggest that
this model tended to overpredict cancer in control smokers.
Conclusions: Plasma proteomic profiling with SELDI-TOF mass spectrometry provides moderate sensitivity and specificity in discriminating
HNSCC. Further improvement and validation of this approach is needed to determine its usefulness in screening for this disease.</description><identifier>ISSN: 1078-0432</identifier><identifier>EISSN: 1557-3265</identifier><identifier>DOI: 10.1158/1078-0432.CCR-03-0469</identifier><identifier>PMID: 15269156</identifier><language>eng</language><publisher>Philadelphia, PA: American Association for Cancer Research</publisher><subject>Adult ; Aged ; Aged, 80 and over ; Antineoplastic agents ; Biological and medical sciences ; Biomarkers, Tumor - blood ; Female ; Head and Neck Neoplasms - blood ; Head and Neck Neoplasms - diagnosis ; Head and Neck Neoplasms - metabolism ; Humans ; Male ; Medical sciences ; Middle Aged ; Neoplasms, Squamous Cell - blood ; Neoplasms, Squamous Cell - diagnosis ; Neoplasms, Squamous Cell - metabolism ; Pharmacology. Drug treatments ; Proteome - analysis ; Reproducibility of Results ; Sensitivity and Specificity ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods ; Tumors</subject><ispartof>Clinical cancer research, 2004-07, Vol.10 (14), p.4806-4812</ispartof><rights>2004 INIST-CNRS</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523</citedby><cites>FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=15974738$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15269156$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>SOLTYS, Scott G</creatorcontrib><creatorcontrib>LE, Quynh-Thu</creatorcontrib><creatorcontrib>SHI, Gongyi</creatorcontrib><creatorcontrib>TIBSHIRANI, Robert</creatorcontrib><creatorcontrib>GIACCIA, A. J</creatorcontrib><creatorcontrib>KOONG, Albert C</creatorcontrib><title>The Use of Plasma Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Proteomic Patterns for Detection of Head and Neck Squamous Cell Cancers</title><title>Clinical cancer research</title><addtitle>Clin Cancer Res</addtitle><description>Purpose: Our study was undertaken to determine the utility of plasma proteomic profiling using surface-enhanced laser desorption/ionization
time-of-flight (SELDI-TOF) mass spectrometry for the detection of head and neck squamous cell carcinomas (HNSCCs).
Experimental Design: Pretreatment plasma samples from HNSCC patients or controls without known neoplastic disease were analyzed on the Protein
Biology System IIc SELDI-TOF mass spectrometer (Ciphergen Biosystems, Fremont, CA). Proteomic spectra of mass:charge ratio
( m / z ) were generated by the application of plasma to immobilized metal-affinity-capture (IMAC) ProteinChip arrays activated with
copper. A total of 37,356 data points were generated for each sample. A training set of spectra from 56 cancer patients and
52 controls were applied to the “Lasso” technique to identify protein profiles that can distinguish cancer from noncancer,
and cross-validation was used to determine test errors in this training set. The discovery pattern was then used to classify
a separate masked test set of 57 cancer and 52 controls. In total, we analyzed the proteomic spectra of 113 cancer patients
and 104 controls.
Results: The Lasso approach identified 65 significant data points for the discrimination of normal from cancer profiles. The discriminatory
pattern correctly identified 39 of 57 HNSCC patients and 40 of 52 noncancer controls in the masked test set. These results
yielded a sensitivity of 68% and specificity of 73%. Subgroup analyses in the test set of four different demographic factors
(age, gender, and cigarette and alcohol use) that can potentially confound the interpretation of the results suggest that
this model tended to overpredict cancer in control smokers.
Conclusions: Plasma proteomic profiling with SELDI-TOF mass spectrometry provides moderate sensitivity and specificity in discriminating
HNSCC. Further improvement and validation of this approach is needed to determine its usefulness in screening for this disease.</description><subject>Adult</subject><subject>Aged</subject><subject>Aged, 80 and over</subject><subject>Antineoplastic agents</subject><subject>Biological and medical sciences</subject><subject>Biomarkers, Tumor - blood</subject><subject>Female</subject><subject>Head and Neck Neoplasms - blood</subject><subject>Head and Neck Neoplasms - diagnosis</subject><subject>Head and Neck Neoplasms - metabolism</subject><subject>Humans</subject><subject>Male</subject><subject>Medical sciences</subject><subject>Middle Aged</subject><subject>Neoplasms, Squamous Cell - blood</subject><subject>Neoplasms, Squamous Cell - diagnosis</subject><subject>Neoplasms, Squamous Cell - metabolism</subject><subject>Pharmacology. Drug treatments</subject><subject>Proteome - analysis</subject><subject>Reproducibility of Results</subject><subject>Sensitivity and Specificity</subject><subject>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods</subject><subject>Tumors</subject><issn>1078-0432</issn><issn>1557-3265</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2004</creationdate><recordtype>article</recordtype><recordid>eNpNkUFv1DAQhSMEoqXwE0C-gMQhrR073uSI0pZWWmDFbs_WxB6TQBJvbUeo_CH-Jk53EZzmHb6ZeXovy14zes5YWV0wuqpyKnhx3jRfc8qTlvWT7JSV5SrnhSyfJv2XOclehPCdUiYYFc-zE1YWsmalPM1-7zokdwGJs2QzQBiBbGdvQWN-NXUwaTRkDQE9ucTg_D72brq4dVP_CxZJdv2IubP59dB_6yL5BCGQ7R519G7E6B_IxruIbuw12UCM6KdArFuuxQQtF9LjGwRDYDLkM-ofZHs_w-jmQBocBtIsHnx4mT2zMAR8dZxn2d311a65yddfPt42H9a5FkzG3Ja1BWhthWg0RSopWMPassbWWKgK4EANtUIKoSuLUNsWTMsNrWllRFnws-zd4e7eu_sZQ1RjH3QyAhMmT0rKFWe0qBJYHkDtXQgerdr7fgT_oBhVS0NqSV8t6avUkKJcLQ2lvTfHB3M7ovm3dawkAW-PAAQNg_UpgD78x9UrseKLgfcHrkvJ_-w9Kv0YlceA4HX36EMoUVHJ_wBP9auR</recordid><startdate>20040715</startdate><enddate>20040715</enddate><creator>SOLTYS, Scott G</creator><creator>LE, Quynh-Thu</creator><creator>SHI, Gongyi</creator><creator>TIBSHIRANI, Robert</creator><creator>GIACCIA, A. J</creator><creator>KOONG, Albert C</creator><general>American Association for Cancer Research</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>20040715</creationdate><title>The Use of Plasma Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Proteomic Patterns for Detection of Head and Neck Squamous Cell Cancers</title><author>SOLTYS, Scott G ; LE, Quynh-Thu ; SHI, Gongyi ; TIBSHIRANI, Robert ; GIACCIA, A. J ; KOONG, Albert C</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2004</creationdate><topic>Adult</topic><topic>Aged</topic><topic>Aged, 80 and over</topic><topic>Antineoplastic agents</topic><topic>Biological and medical sciences</topic><topic>Biomarkers, Tumor - blood</topic><topic>Female</topic><topic>Head and Neck Neoplasms - blood</topic><topic>Head and Neck Neoplasms - diagnosis</topic><topic>Head and Neck Neoplasms - metabolism</topic><topic>Humans</topic><topic>Male</topic><topic>Medical sciences</topic><topic>Middle Aged</topic><topic>Neoplasms, Squamous Cell - blood</topic><topic>Neoplasms, Squamous Cell - diagnosis</topic><topic>Neoplasms, Squamous Cell - metabolism</topic><topic>Pharmacology. Drug treatments</topic><topic>Proteome - analysis</topic><topic>Reproducibility of Results</topic><topic>Sensitivity and Specificity</topic><topic>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods</topic><topic>Tumors</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>SOLTYS, Scott G</creatorcontrib><creatorcontrib>LE, Quynh-Thu</creatorcontrib><creatorcontrib>SHI, Gongyi</creatorcontrib><creatorcontrib>TIBSHIRANI, Robert</creatorcontrib><creatorcontrib>GIACCIA, A. J</creatorcontrib><creatorcontrib>KOONG, Albert C</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Clinical cancer research</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>SOLTYS, Scott G</au><au>LE, Quynh-Thu</au><au>SHI, Gongyi</au><au>TIBSHIRANI, Robert</au><au>GIACCIA, A. J</au><au>KOONG, Albert C</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The Use of Plasma Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Proteomic Patterns for Detection of Head and Neck Squamous Cell Cancers</atitle><jtitle>Clinical cancer research</jtitle><addtitle>Clin Cancer Res</addtitle><date>2004-07-15</date><risdate>2004</risdate><volume>10</volume><issue>14</issue><spage>4806</spage><epage>4812</epage><pages>4806-4812</pages><issn>1078-0432</issn><eissn>1557-3265</eissn><abstract>Purpose: Our study was undertaken to determine the utility of plasma proteomic profiling using surface-enhanced laser desorption/ionization
time-of-flight (SELDI-TOF) mass spectrometry for the detection of head and neck squamous cell carcinomas (HNSCCs).
Experimental Design: Pretreatment plasma samples from HNSCC patients or controls without known neoplastic disease were analyzed on the Protein
Biology System IIc SELDI-TOF mass spectrometer (Ciphergen Biosystems, Fremont, CA). Proteomic spectra of mass:charge ratio
( m / z ) were generated by the application of plasma to immobilized metal-affinity-capture (IMAC) ProteinChip arrays activated with
copper. A total of 37,356 data points were generated for each sample. A training set of spectra from 56 cancer patients and
52 controls were applied to the “Lasso” technique to identify protein profiles that can distinguish cancer from noncancer,
and cross-validation was used to determine test errors in this training set. The discovery pattern was then used to classify
a separate masked test set of 57 cancer and 52 controls. In total, we analyzed the proteomic spectra of 113 cancer patients
and 104 controls.
Results: The Lasso approach identified 65 significant data points for the discrimination of normal from cancer profiles. The discriminatory
pattern correctly identified 39 of 57 HNSCC patients and 40 of 52 noncancer controls in the masked test set. These results
yielded a sensitivity of 68% and specificity of 73%. Subgroup analyses in the test set of four different demographic factors
(age, gender, and cigarette and alcohol use) that can potentially confound the interpretation of the results suggest that
this model tended to overpredict cancer in control smokers.
Conclusions: Plasma proteomic profiling with SELDI-TOF mass spectrometry provides moderate sensitivity and specificity in discriminating
HNSCC. Further improvement and validation of this approach is needed to determine its usefulness in screening for this disease.</abstract><cop>Philadelphia, PA</cop><pub>American Association for Cancer Research</pub><pmid>15269156</pmid><doi>10.1158/1078-0432.CCR-03-0469</doi><tpages>7</tpages><oa>free_for_read</oa></addata></record> |
fulltext | fulltext |
identifier | ISSN: 1078-0432 |
ispartof | Clinical cancer research, 2004-07, Vol.10 (14), p.4806-4812 |
issn | 1078-0432 1557-3265 |
language | eng |
recordid | cdi_proquest_miscellaneous_66731028 |
source | Freely Accessible Science Journals - check A-Z of ejournals |
subjects | Adult Aged Aged, 80 and over Antineoplastic agents Biological and medical sciences Biomarkers, Tumor - blood Female Head and Neck Neoplasms - blood Head and Neck Neoplasms - diagnosis Head and Neck Neoplasms - metabolism Humans Male Medical sciences Middle Aged Neoplasms, Squamous Cell - blood Neoplasms, Squamous Cell - diagnosis Neoplasms, Squamous Cell - metabolism Pharmacology. Drug treatments Proteome - analysis Reproducibility of Results Sensitivity and Specificity Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization - methods Tumors |
title | The Use of Plasma Surface-Enhanced Laser Desorption/Ionization Time-of-Flight Mass Spectrometry Proteomic Patterns for Detection of Head and Neck Squamous Cell Cancers |
url | http://sfxeu10.hosted.exlibrisgroup.com/loughborough?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-24T16%3A43%3A07IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=The%20Use%20of%20Plasma%20Surface-Enhanced%20Laser%20Desorption/Ionization%20Time-of-Flight%20Mass%20Spectrometry%20Proteomic%20Patterns%20for%20Detection%20of%20Head%20and%20Neck%20Squamous%20Cell%20Cancers&rft.jtitle=Clinical%20cancer%20research&rft.au=SOLTYS,%20Scott%20G&rft.date=2004-07-15&rft.volume=10&rft.issue=14&rft.spage=4806&rft.epage=4812&rft.pages=4806-4812&rft.issn=1078-0432&rft.eissn=1557-3265&rft_id=info:doi/10.1158/1078-0432.CCR-03-0469&rft_dat=%3Cproquest_cross%3E66731028%3C/proquest_cross%3E%3Cgrp_id%3Ecdi_FETCH-LOGICAL-c416t-f59faabf8eedc0e060afd1b59ebdfa82a3a0d0f4644c8fea9fbadb3d0908d4523%3C/grp_id%3E%3Coa%3E%3C/oa%3E%3Curl%3E%3C/url%3E&rft_id=info:oai/&rft_pqid=66731028&rft_id=info:pmid/15269156&rfr_iscdi=true |