Multi-omic molecular profiling of lung cancer in COPD

Brian J. Sandri, Adam Kaplan, Shane W. Hodgson, Mark Peterson, Svetlana Avdulov, Lee Ann Higgins, Todd Markowski, Ping Yang, Andrew Harold Limper, Timothy J. Griffin, Peter Bitterman, Eric F. Lock, Chris H. Wendt

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Chronic obstructive pulmonary disease (COPD) is a known risk factor for developing lung cancer but the underlying mechanisms remain unknown. We hypothesise that the COPD stroma contains molecular mechanisms supporting tumourigenesis. We conducted an unbiased multi-omic analysis to identify gene expression patterns that distinguish COPD stroma in patients with or without lung cancer. We obtained lung tissue from patients with COPD and lung cancer (tumour and adjacent non-malignant tissue) and those with COPD without lung cancer for profiling of proteomic and mRNA (both cytoplasmic and polyribosomal). We used the Joint and Individual Variation Explained (JIVE) method to integrate and analyse across the three datasets. JIVE identified eight latent patterns that robustly distinguished and separated the three groups of tissue samples (tumour, adjacent and control). Predictive variables that associated with the tumour, compared to adjacent stroma, were mainly represented in the transcriptomic data, whereas predictive variables associated with adjacent tissue, compared to controls, were represented at the translatomic level. Pathway analysis revealed extracellular matrix and phosphatidylinositol-4,5-bisphosphate 3-kinase-protein kinase B signalling pathways as important signals in the tumour adjacent stroma. The multi-omic approach distinguishes tumour adjacent stroma in lung cancer and reveals two stromal expression patterns associated with cancer.

Original languageEnglish (US)
Article number1702665
JournalEuropean Respiratory Journal
Volume52
Issue number1
DOIs
StatePublished - Jul 1 2018

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Chronic Obstructive Pulmonary Disease
Lung Neoplasms
Neoplasms
Joints
Proto-Oncogene Proteins c-akt
Proteomics
Extracellular Matrix
Gene Expression
Lung
Messenger RNA

ASJC Scopus subject areas

  • Pulmonary and Respiratory Medicine

Cite this

Sandri, B. J., Kaplan, A., Hodgson, S. W., Peterson, M., Avdulov, S., Higgins, L. A., ... Wendt, C. H. (2018). Multi-omic molecular profiling of lung cancer in COPD. European Respiratory Journal, 52(1), [1702665]. https://doi.org/10.1183/13993003.02665-2017

Multi-omic molecular profiling of lung cancer in COPD. / Sandri, Brian J.; Kaplan, Adam; Hodgson, Shane W.; Peterson, Mark; Avdulov, Svetlana; Higgins, Lee Ann; Markowski, Todd; Yang, Ping; Limper, Andrew Harold; Griffin, Timothy J.; Bitterman, Peter; Lock, Eric F.; Wendt, Chris H.

In: European Respiratory Journal, Vol. 52, No. 1, 1702665, 01.07.2018.

Research output: Contribution to journalArticle

Sandri, BJ, Kaplan, A, Hodgson, SW, Peterson, M, Avdulov, S, Higgins, LA, Markowski, T, Yang, P, Limper, AH, Griffin, TJ, Bitterman, P, Lock, EF & Wendt, CH 2018, 'Multi-omic molecular profiling of lung cancer in COPD', European Respiratory Journal, vol. 52, no. 1, 1702665. https://doi.org/10.1183/13993003.02665-2017
Sandri BJ, Kaplan A, Hodgson SW, Peterson M, Avdulov S, Higgins LA et al. Multi-omic molecular profiling of lung cancer in COPD. European Respiratory Journal. 2018 Jul 1;52(1). 1702665. https://doi.org/10.1183/13993003.02665-2017
Sandri, Brian J. ; Kaplan, Adam ; Hodgson, Shane W. ; Peterson, Mark ; Avdulov, Svetlana ; Higgins, Lee Ann ; Markowski, Todd ; Yang, Ping ; Limper, Andrew Harold ; Griffin, Timothy J. ; Bitterman, Peter ; Lock, Eric F. ; Wendt, Chris H. / Multi-omic molecular profiling of lung cancer in COPD. In: European Respiratory Journal. 2018 ; Vol. 52, No. 1.
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