publication . Other literature type . Article . Preprint . 2018

Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers

Tiannan Guo; Li Li; Qing Zhong; Niels J Rupp; Konstantina Charmpi; Christine E Wong; Ulrich Wagner; Jan H Rueschoff; Wolfram Jochum; Christian Daniel Fankhauser; ...
Open Access English
  • Published: 18 Jan 2018
  • Country: Switzerland
Abstract
<jats:p>It remains unclear to what extent tumor heterogeneity impacts on protein biomarker discovery. Here, we quantified proteome intra-tissue heterogeneity (ITH) based on a multi-region analysis of prostate tissues using pressure cycling technology and Sequential Windowed Acquisition of all THeoretical fragment ion mass spectrometry. We quantified 6,873 proteins and analyzed the ITH of 3,700 proteins. The level of ITH varied depending on proteins and tissue types. Benign tissues exhibited more complex ITH patterns than malignant tissues. Spatial variability of 10 prostate biomarkers was validated by immunohistochemistry in an independent cohort (n = 83) using ...
Subjects
free text keywords: SWATH, biomarker, ITH, tumors, genetic heterogeneity, Institute of Pathology and Molecular Pathology, Urological Clinic, 610 Medicine & health, Article, Biology, Bioinformatics, Biomarker discovery, Proteome, Biomarker (medicine), Hyperplasia, medicine.disease, medicine, Immunohistochemistry, Prostate, medicine.anatomical_structure, Computational biology, Tissue microarray
Funded by
EC| PrECISE
Project
PrECISE
PERSONALIZED ENGINE FOR CANCER INTEGRATIVE STUDY AND EVALUATION
  • Funder: European Commission (EC)
  • Project Code: 668858
  • Funding stream: H2020 | RIA
,
EC| PROTEOMICS V3.0
Project
PROTEOMICS V3.0
Proteomics v3.0: Development, Implementation and Dissemination of a Third Generation Proteomics Technology
  • Funder: European Commission (EC)
  • Project Code: 233226
  • Funding stream: FP7 | SP2 | ERC
,
SNSF| Development and application of a technology and platform for high throughput quantitative plasma proteome profiling
Project
  • Funder: Swiss National Science Foundation (SNSF)
  • Project Code: 31003AB-107679
  • Funding stream: Project funding | Project funding (Div. I-III)
,
EC| PROTEOMICS4D
Project
PROTEOMICS4D
Proteomics 4D: The proteome in context
  • Funder: European Commission (EC)
  • Project Code: 670821
  • Funding stream: H2020 | ERC | ERC-ADG
Europe PubMed Central
Other literature type . 2018
ETH Zürich Research Collection
Other literature type . 2018
Provider: Datacite
bioRxiv
Preprint . 2018
Provider: bioRxiv
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publication . Other literature type . Article . Preprint . 2018

Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers

Tiannan Guo; Li Li; Qing Zhong; Niels J Rupp; Konstantina Charmpi; Christine E Wong; Ulrich Wagner; Jan H Rueschoff; Wolfram Jochum; Christian Daniel Fankhauser; ...