Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms

Detalhes bibliográficos
Autor(a) principal: Jorge, Susana
Data de Publicação: 2021
Outros Autores: Capelo, José L., LaFramboise, William, Satturwar, Swati, Korentzelos, Dimitrios, Bastacky, Sheldon, Quiroga-Garza, Gabriela, Dhir, Rajiv, Wiśniewski, Jacek R., Lodeiro, Carlos, Santos, Hugo M.
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10362/125105
Resumo: PM003/2016).) .. This project utilized the University of Pittsburgh Hillman Cancer Center shared resource facilities (Cancer Genomics Facility and The Health Science Tissue Bank) supported in part by award P30CA047904 (Dr. W. LaFramboise and R. Dhir).
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spelling Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasmsMass spectrometry-based proteomicsRenal neoplasms, ImmunohistochemistryTissue micro-array (TMA)Total protein approach (TPA)Medicine(all)SDG 3 - Good Health and Well-beingPM003/2016).) .. This project utilized the University of Pittsburgh Hillman Cancer Center shared resource facilities (Cancer Genomics Facility and The Health Science Tissue Bank) supported in part by award P30CA047904 (Dr. W. LaFramboise and R. Dhir).Background: Renal neoplasms encompass a variety of malignant and benign tumors, including many with shared characteristics. The diagnosis of these renal neoplasms remains challenging with currently available tools. In this work, we demonstrate the total protein approach (TPA) based on high-resolution mass spectrometry (MS) as a tool to improve the accuracy of renal neoplasm diagnosis. Methods: Frozen tissue biopsies of human renal tissues [clear cell renal cell carcinoma (n = 7), papillary renal cell carcinoma (n = 5), chromophobe renal cell carcinoma (n = 5), and renal oncocytoma (n = 5)] were collected for proteome analysis. Normal adjacent renal tissue (NAT, n = 5) was used as a control. Proteins were extracted and digested using trypsin, and the digested proteomes were analyzed by label-free high-resolution MS (nanoLC-ESI-HR-MS/MS). Quantitative analysis was performed by comparison between protein abundances of tumors and NAT specimens, and the label-free and standard-free TPA was used to obtain absolute protein concentrations. Results: A total of 205 differentially expressed proteins with the potential to distinguish the renal neoplasms were found. Of these proteins, a TPA-based panel of 24, including known and new biomarkers, was selected as the best candidates to differentiate the neoplasms. As proof of concept, the diagnostic potential of PLIN2, TUBB3, LAMP1, and HK1 was validated using semi-quantitative immunohistochemistry with a total of 128 samples assessed on tissue micro-arrays. Conclusions: We demonstrate the utility of combining high-resolution MS and the TPA as potential new diagnostic tool in the pathology of renal neoplasms. A similar TPA approach may be implemented in any cancer study with solid biopsies.DQ - Departamento de QuímicaLAQV@REQUIMTERUNJorge, SusanaCapelo, José L.LaFramboise, WilliamSatturwar, SwatiKorentzelos, DimitriosBastacky, SheldonQuiroga-Garza, GabrielaDhir, RajivWiśniewski, Jacek R.Lodeiro, CarlosSantos, Hugo M.2021-09-24T02:26:27Z2021-122021-12-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10362/125105eng1741-7015PURE: 33890664https://doi.org/10.1186/s12916-021-02071-9info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-03-11T05:06:19Zoai:run.unl.pt:10362/125105Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T03:45:40.321103Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
title Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
spellingShingle Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
Jorge, Susana
Mass spectrometry-based proteomics
Renal neoplasms, Immunohistochemistry
Tissue micro-array (TMA)
Total protein approach (TPA)
Medicine(all)
SDG 3 - Good Health and Well-being
title_short Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
title_full Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
title_fullStr Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
title_full_unstemmed Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
title_sort Absolute quantitative proteomics using the total protein approach to identify novel clinical immunohistochemical markers in renal neoplasms
author Jorge, Susana
author_facet Jorge, Susana
Capelo, José L.
LaFramboise, William
Satturwar, Swati
Korentzelos, Dimitrios
Bastacky, Sheldon
Quiroga-Garza, Gabriela
Dhir, Rajiv
Wiśniewski, Jacek R.
Lodeiro, Carlos
Santos, Hugo M.
author_role author
author2 Capelo, José L.
LaFramboise, William
Satturwar, Swati
Korentzelos, Dimitrios
Bastacky, Sheldon
Quiroga-Garza, Gabriela
Dhir, Rajiv
Wiśniewski, Jacek R.
Lodeiro, Carlos
Santos, Hugo M.
author2_role author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv DQ - Departamento de Química
LAQV@REQUIMTE
RUN
dc.contributor.author.fl_str_mv Jorge, Susana
Capelo, José L.
LaFramboise, William
Satturwar, Swati
Korentzelos, Dimitrios
Bastacky, Sheldon
Quiroga-Garza, Gabriela
Dhir, Rajiv
Wiśniewski, Jacek R.
Lodeiro, Carlos
Santos, Hugo M.
dc.subject.por.fl_str_mv Mass spectrometry-based proteomics
Renal neoplasms, Immunohistochemistry
Tissue micro-array (TMA)
Total protein approach (TPA)
Medicine(all)
SDG 3 - Good Health and Well-being
topic Mass spectrometry-based proteomics
Renal neoplasms, Immunohistochemistry
Tissue micro-array (TMA)
Total protein approach (TPA)
Medicine(all)
SDG 3 - Good Health and Well-being
description PM003/2016).) .. This project utilized the University of Pittsburgh Hillman Cancer Center shared resource facilities (Cancer Genomics Facility and The Health Science Tissue Bank) supported in part by award P30CA047904 (Dr. W. LaFramboise and R. Dhir).
publishDate 2021
dc.date.none.fl_str_mv 2021-09-24T02:26:27Z
2021-12
2021-12-01T00:00:00Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10362/125105
url http://hdl.handle.net/10362/125105
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 1741-7015
PURE: 33890664
https://doi.org/10.1186/s12916-021-02071-9
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
instname_str Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron_str RCAAP
institution RCAAP
reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
collection Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
repository.name.fl_str_mv Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
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