Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase
- Publikationstyp:
- Zeitschriftenaufsatz
- Metadaten:
-
- Autoren
- Stefan Tenzer
- Petra Leidinger
- Christina Backes
- Hanno Huwer
- Andreas Hildebrandt
- Hans-Peter Lenhof
- Tanja Wesse
- Andre Franke
- Eckart Meese
- Andreas Keller
- Autoren-URL
- https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=fis-test-1&SrcAuth=WosAPI&KeyUT=WOS:000375687200118&DestLinkType=FullRecord&DestApp=WOS_CPL
- DOI
- 10.18632/oncotarget.7562
- eISSN
- 1949-2553
- Externe Identifier
- Clarivate Analytics Document Solution ID: DL5OT
- PubMed Identifier: 26930711
- Ausgabe der Veröffentlichung
- 12
- Zeitschrift
- ONCOTARGET
- Schlüsselwörter
- mass spectrometry
- proteomics analysis
- transcriptomics
- lung tumors
- adenocarcinoma
- Paginierung
- 14857 - 14870
- Datum der Veröffentlichung
- 2016
- Status
- Published
- Titel
- Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase
- Sub types
- Article
- Ausgabe der Zeitschrift
- 7
Datenquelle: Web of Science (Lite)
- Andere Metadatenquellen:
-
- Autoren
- Stefan Tenzer
- Petra Leidinger
- Christina Backes
- Hanno Huwer
- Andreas Hildebrandt
- Hans-Peter Lenhof
- Tanja Wesse
- Andre Franke
- Eckart Meese
- Andreas Keller
- DOI
- 10.18632/oncotarget.7562
- eISSN
- 1949-2553
- Ausgabe der Veröffentlichung
- 12
- Zeitschrift
- Oncotarget
- Sprache
- en
- Online publication date
- 2016
- Paginierung
- 14857 - 14870
- Datum der Veröffentlichung
- 2016
- Status
- Published
- Herausgeber
- Impact Journals, LLC
- Herausgeber URL
- http://dx.doi.org/10.18632/oncotarget.7562
- Datum der Datenerfassung
- 2020
- Titel
- Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase
- Ausgabe der Zeitschrift
- 7
Datenquelle: Crossref
- Abstract
- Proteomics analysis of paired cancer and control tissue can be applied to investigate pathological processes in tumors. Advancements in data-independent acquisition mass spectrometry allow for highly reproducible quantitative analysis of complex proteomic patterns. Optimized sample preparation workflows enable integrative multi-omics studies from the same tissue specimens.We performed ion mobility enhanced, data-independent acquisition MS to characterize the proteome of 21 lung tumor tissues including adenocarcinoma and squamous cell carcinoma (SCC) as compared to control lung tissues of the same patient each. Transcriptomic data were generated for the same specimens. The quantitative proteomic patterns and mRNA abundances were subsequently analyzed using systems biology approaches.We report a significantly (p = 0.0001) larger repertoire of proteins in cancer tissues. 12 proteins were higher in all tumor tissues as compared to matching control tissues. Three proteins, CAV1, CAV2, and RAGE, were vice versa higher in all controls. We also identified characteristic SCC and adenocarcinoma protein patterns. Principal Component Analysis provided evidence that not only cancer from control tissue but also tissue from adenocarcinoma and SCC can be differentiated. Transcriptomic levels of key proteins measured from the same matched tissue samples correlated with the observed protein patterns.The applied study set-up with paired lung tissue specimens of which different omics are measured, is generally suited for an integrated multi-omics analysis.
- Addresses
- Institute for Immunology, University Medical Center of The Johannes Gutenberg University of Mainz, Mainz, Germany.
- Autoren
- Stefan Tenzer
- Petra Leidinger
- Christina Backes
- Hanno Huwer
- Andreas Hildebrandt
- Hans-Peter Lenhof
- Tanja Wesse
- Andre Franke
- Eckart Meese
- Andreas Keller
- DOI
- 10.18632/oncotarget.7562
- eISSN
- 1949-2553
- Externe Identifier
- PubMed Identifier: 26930711
- PubMed Central ID: PMC4924757
- Open access
- true
- ISSN
- 1949-2553
- Ausgabe der Veröffentlichung
- 12
- Zeitschrift
- Oncotarget
- Schlüsselwörter
- Humans
- Adenocarcinoma
- Carcinoma, Squamous Cell
- Lung Neoplasms
- Proteome
- Neoplasm Staging
- Prognosis
- Case-Control Studies
- Follow-Up Studies
- Gene Expression Profiling
- Proteomics
- Transcriptome
- Biomarkers, Tumor
- Sprache
- eng
- Medium
- Open access status
- Open Access
- Paginierung
- 14857 - 14870
- Datum der Veröffentlichung
- 2016
- Status
- Published
- Publisher licence
- CC BY
- Datum der Datenerfassung
- 2016
- Titel
- Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase.
- Sub types
- research-article
- Journal Article
- Ausgabe der Zeitschrift
- 7
Files
http://www.oncotarget.com/index.php?journal=oncotarget&page=article&op=download&path%5B%5D=7562&path%5B%5D=21843 https://europepmc.org/articles/PMC4924757?pdf=render
Datenquelle: Europe PubMed Central
- Abstract
- Proteomics analysis of paired cancer and control tissue can be applied to investigate pathological processes in tumors. Advancements in data-independent acquisition mass spectrometry allow for highly reproducible quantitative analysis of complex proteomic patterns. Optimized sample preparation workflows enable integrative multi-omics studies from the same tissue specimens.We performed ion mobility enhanced, data-independent acquisition MS to characterize the proteome of 21 lung tumor tissues including adenocarcinoma and squamous cell carcinoma (SCC) as compared to control lung tissues of the same patient each. Transcriptomic data were generated for the same specimens. The quantitative proteomic patterns and mRNA abundances were subsequently analyzed using systems biology approaches.We report a significantly (p = 0.0001) larger repertoire of proteins in cancer tissues. 12 proteins were higher in all tumor tissues as compared to matching control tissues. Three proteins, CAV1, CAV2, and RAGE, were vice versa higher in all controls. We also identified characteristic SCC and adenocarcinoma protein patterns. Principal Component Analysis provided evidence that not only cancer from control tissue but also tissue from adenocarcinoma and SCC can be differentiated. Transcriptomic levels of key proteins measured from the same matched tissue samples correlated with the observed protein patterns.The applied study set-up with paired lung tissue specimens of which different omics are measured, is generally suited for an integrated multi-omics analysis.
- Date of acceptance
- 2016
- Autoren
- Stefan Tenzer
- Petra Leidinger
- Christina Backes
- Hanno Huwer
- Andreas Hildebrandt
- Hans-Peter Lenhof
- Tanja Wesse
- Andre Franke
- Eckart Meese
- Andreas Keller
- Autoren-URL
- https://www.ncbi.nlm.nih.gov/pubmed/26930711
- DOI
- 10.18632/oncotarget.7562
- eISSN
- 1949-2553
- Externe Identifier
- PubMed Central ID: PMC4924757
- Ausgabe der Veröffentlichung
- 12
- Zeitschrift
- Oncotarget
- Schlüsselwörter
- adenocarcinoma
- lung tumors
- mass spectrometry
- proteomics analysis
- transcriptomics
- Adenocarcinoma
- Biomarkers, Tumor
- Carcinoma, Squamous Cell
- Case-Control Studies
- Follow-Up Studies
- Gene Expression Profiling
- Humans
- Lung Neoplasms
- Neoplasm Staging
- Prognosis
- Proteome
- Proteomics
- Transcriptome
- Sprache
- eng
- Country
- United States
- Paginierung
- 14857 - 14870
- PII
- 7562
- Datum der Veröffentlichung
- 2016
- Status
- Published
- Datum, an dem der Datensatz öffentlich gemacht wurde
- 2018
- Titel
- Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase.
- Sub types
- Journal Article
- Ausgabe der Zeitschrift
- 7
Datenquelle: PubMed
- Autoren
- Stefan Tenzer
- Petra Leidinger
- Christina Backes
- Hanno Huwer
- Andreas Hildebrandt
- Hans-Peter Lenhof
- Tanja Wesse
- Andre Franke
- Eckart Meese
- Andreas Keller
- Zeitschrift
- Oncotarget
- Artikelnummer
- 12
- Paginierung
- 14857 - 14857
- Datum der Veröffentlichung
- 2016
- Herausgeber
- Impact Journals, LLC
- Datum der Datenerfassung
- 2020
- Titel
- Integrated quantitative proteomic and transcriptomic analysis of lung tumor and control tissue: a lung cancer showcase
- Sub types
- article
- Ausgabe der Zeitschrift
- 7
Datenquelle: Manual
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